biochemistry (1) 2018-2019 new -...
TRANSCRIPT
![Page 1: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/1.jpg)
BIOCHEMISTRY (1)
Dr. Saba Zuhair HusseinChemistry Department- College of Science
1st Semester2018/2019
2nd Stage Students Biology Department – College of
Science
![Page 2: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/2.jpg)
BOOKS Principals of Biochemistry, 4th ed. by
Horton et.al, 2006.
Biochemistry, 2ed by P. Naik 2007
(JAYPEE).
![Page 3: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/3.jpg)
:ONTENTSC
Amino Acid
Peptides
Nucleic acid
![Page 4: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/4.jpg)
![Page 5: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/5.jpg)
Amino Acid
![Page 6: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/6.jpg)
Amino acids are building blocks of peptides andproteins
They are organic compounds containing amine (-NH2) and carboxyl (-COOH) functional groups,along with a side chain (R group) specific to eachamino acid. The key elements of an amino acid arecarbon (C), hydrogen (H), oxygen (O), and nitrogen(N), although other elements are found in the sidechains of certain amino acids.
![Page 7: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/7.jpg)
-The first to be discovered was Asparagine(Asn), in 1806, French chemists Louis-NicolasVauquelin and Pierre Jean Robiquet isolated acompound from asparagus(named asparagine)
-The last of the 20 common amino acids to bediscovered was Threonine (Thr) in 1938 byWilliam Cumming Rose .
![Page 8: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/8.jpg)
Structure of the Amino AcidsAlthough over 200 amino acids have been shown tobe present in the various plants and animals, only20 of them (L- isomers) are commonly found inproteins, these 20 amino acids of proteins are oftenreferred to as standard, primary or normalamino acids, to distinguish them from others.They are called proteogenic amino acids.
The others which never occur in proteins are knownas non- proteogenic amino acids.
L-form
![Page 9: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/9.jpg)
1. Classification based on the position of amino group
- All 20 of thecommon aminoacids areɑ-amino acids
Classification of Amino Acids
Amino acids may be classified as α, β or γ - amino acidsaccording to the position of the amino group in the carbonchain
![Page 10: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/10.jpg)
Classification of Amino Acids2. Classification based on their acid-base propertiesOn the basis of the acid-base properties in solution,amino acids are classified into three types
i) Neutral amino acids : Most α-amino acidscontain an amino group at one end and a carboxylgroup at the other end. They do not contain anyamino group or carboxyl group in the side chain(R). These are called neutral amino acids
Examples
![Page 11: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/11.jpg)
Classification of Amino Acids
ii) Acidic amino acids : The amino acidscontaining an extra carboxyl group in the sidechain are referred to as acidic acids
Examples
Aspartic acid Glutamic acid
![Page 12: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/12.jpg)
Classification of Amino Acids
iii) Basic amino acids : The amino acidscontaining an extra amino group in the side chainare termed basic amino acids
Examples
Lysine Arginine
![Page 13: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/13.jpg)
Nutritional Classification of Amino Acids3. Classification based on their biological importance
i) Essential or indispensable:Amino acids are essential for the growth of body and itsprotection from diseases. Certain amino acids which areessential for the growth of body, cannot be synthesized bythe body. Therefore, they must be included in the humandiet.Such amino acids are referred to as essential amino acids.They are also called indispensable amino acids.
Val Phe MetLeu Trp LysIle HisThr Arg
These are rich in cereals, soyabeans, egg, milk, cheese,meat, carrot leaves and tender coconut
![Page 14: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/14.jpg)
Nutritional Classification of Amino Acids
ii) Non-Essential or dispensable:They can be produced from endogenous metabolites.Hence, they need not be included in the diet. These aminoacids are termed nonessential amino acids
Gly Glu TyrAla Gln ProSer AspCys Asn
![Page 15: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/15.jpg)
![Page 16: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/16.jpg)
Classification of Amino Acids
3. Classification based on their structure
![Page 17: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/17.jpg)
Classification of Amino Acids)aa.7 Groups (R Aliphatic , Nonpolar
Sym.Abr.NameGGlyGlycineAAlaAlaninePProProlineVValValineLLeuLeucineIIleIsoleucineMMetMethionine
They include amino acids with aliphatic sidechains
![Page 18: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/18.jpg)
Classification of Amino Acids)aa.7 Groups (R Aliphatic , Nonpolar
Sym.Abr.NameGGlyGlycineAAlaAlaninePProProlineVValValineLLeuLeucineIIleIsoleucineMMetMethionine
![Page 19: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/19.jpg)
Classification of Amino Acids
Met (Thioether group) - CH2-S-CH3
![Page 20: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/20.jpg)
a)a.3Aromatic R Groups (-
Sym.Abr.NameFPhePhenylalanineYTyrTyrosineWTrpTryptophan
These are amino acids containing aromatic rings inthe side chain
![Page 21: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/21.jpg)
Trp (Indole Ring)
Tyr (Hydroxyl group) - OH
![Page 22: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/22.jpg)
-Tryptophan and Tyrosine, and to a much lesserextent Phenylalanine, absorb ultraviolet light.-This accounts for the characteristic strongabsorbance of light by most proteins at awavelength of 280 nm, a property exploited byresearchers in the characterization of proteins.
![Page 23: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/23.jpg)
)aa.5 Polar Uncharged R Groups (
Sym.Abr.Name
SSerSerine
TThrThreonine
CCysCysteine
NAsnAsparagine
QGlnGlutamine
![Page 24: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/24.jpg)
Ser & Thr (Hydroxyl group) -
OH
Cys (Thiol group) -SH
Asn & Gln (Amide group)
![Page 25: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/25.jpg)
Cysteine is readily oxidized to form a covalently linkeddimeric amino acid called Cystine, in which twocysteine molecules or residues are joined by adisulfide bond. The disulfide-linked residues arestrongly hydrophobic (nonpolar).
Polar
non-Polar
![Page 26: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/26.jpg)
Disulfide bonds play a special role in the structures ofmany proteins by forming covalent links betweenparts of a protein molecule or between two differentpolypeptide chains
Disulfide bonds
![Page 27: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/27.jpg)
)aa.3 Basic) (Positively charged R Groups (
Sym.Abr.Name
KLysLysine
RArgArginine
HHisHistidine
Arg (Guanidino group) His (Imidazolegroup)
Diamino acids (Basic amino acids) : These amino acidscontain two amino groups, one in the main an the other inthe side chain
![Page 28: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/28.jpg)
Histidine is the only common amino acid havingan ionizable side chain with a pKa near neutrality.In many enzyme-catalyzed reactions, a His residuefacilitates the reaction by serving as a protondonor/acceptor
![Page 29: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/29.jpg)
)aa.2 Acidic) (Negatively charged R Groups (
Sym.Abr.NameDAspAspartate
Aspartic acidEGluGlutamate
Glutamic acid
![Page 30: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/30.jpg)
![Page 31: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/31.jpg)
Importance of Amino Acids
1. Formation of proteins: amino acidsare joined to each other by peptide bondsto form proteins and peptides.2. Formation of glucose: glucogenicamino acids are converted to glucose in thebody.3. Enzyme activity: the thiol group (-SH)of cysteine has an important role in certainenzyme activity.4.Transport and storage form ofammonia: amino acid glutamine play animportant role in transport and storage ofamino nitrogen in the form of ammonia.
![Page 32: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/32.jpg)
Importance of Amino Acids
5. As a buffer: both free amino acids andsome amino acids present in protein canpotentially act as buffer , e.g. histidine canserve as the best buffer at physiologicalbuffer ( pH= 7 ).6. Detoxification reactions: Glycine ,cysteine and methionine are involved in thedetoxification of toxic substances.7. Formation of biologically importantcompounds: specific amino acids can giverise to specific biologically importantcompounds in the body
![Page 33: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/33.jpg)
Importance of Amino AcidsBiologically important compounds formed byamino acid
Amino acid Biologically important compoundTyrosine Hormone, e.g. adrenaline and
thyroxine , Skin pigment,e.g. melaninTryptophane Vitamin , e.g. niacin Glycine ,arginine and methionine
Creatine
Glycine and , cysteine Bile saltsGlycine HaemAspartic and glutamicacids
Pyrimidine bases
Glycine, aspartic acid and glutamic acid
Purine bases
ß-Alanine Coenzyme-A
![Page 34: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/34.jpg)
Physical Properties of Amino Acids They are :ColorlessCrystalline substances with different taste,Generally soluble in water.They have high melting points (above 200ºC)and often result in decomposition.
The ɑ -carbon of amino acids is bonded to fourdifferent groups:a carboxyl group,an amino group,an R group, anda hydrogen atom (except in Glycine, the R
group is another hydrogen atom).
Optical activity
![Page 35: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/35.jpg)
That led the ɑ-carbon atom to be a asymmetric -chiral center.Because of this asymmetry, all naturally occurringamino acids (of course except Glycine- is opticallyinactive-) exist in two optically active forms :those having –NH2 group to the right aredesigned as D-form and those having –NH2 groupto the left are designed as L-form
![Page 36: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/36.jpg)
Physical Properties of Amino Acids
However the two amino acids, Threonine andIsoleucine have two asymmetric carbon atomseach and thus have ( 2n = 22 = 4 ) optical isomers.
At pH=7 both carboxyl and amino groups areionized.
All the amino acids found in proteins areexclusively of the L-configuration (LStereoisomers).
However, D- amino acids are found in someantibiotics produced by microorganisms and inbacterial cell walls
![Page 37: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/37.jpg)
Amino Acids Can Act as Acids and Bases
When an amino acid (monoamino monocarboxylicacid) is dissolved in water, it exists in solution asthe dipolar ion, or Zwitterion, which means thatthey have both positive and negative charges onthe same amino acids(the acidic ɑ-COOH group is ionized andbecomes negatively charged anion –COO- & thebasic ɑ-NH2 group is protonated to formpositively charged cation –NH3+ )
Thus, the overall molecule is electricallyneutral. Substances having this dual nature areAmphoteric and are often called Ampholytes.
![Page 38: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/38.jpg)
A zwitter ion can act as either
an acid (proton donor)
or a base (proton acceptor)
![Page 39: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/39.jpg)
Amino Acids May Have Positive, Negative or Zero NetCharge.The net charge of an amino acid depends upon the pH ofthe medium, therefore by changing the pH we can alter thecharge on amino acids or proteins, which facilitates thephysical separation of amino acids or proteins:
Acidic pH (pH<PI)Cation
Amino acid is soluble
Isoelectric pH (pH=PI)Zwitter ion (neutral)
Amino acid is precipitate
Basic pH (pH>PI)Anion
Amino acid is soluble
![Page 40: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/40.jpg)
At acidic pH (high concentration of H+ ions),ionized –COO- group lose sits proton and becomesuncharged (-COOH), so the overall charge onmolecule is positive (the net charge=+ve).At alkaline pH (low concentration of H+ ions),the –NH3+ group accept a proton and becomesuncharged (-NH2), so the overall charge onmolecule is negative (the net charge=-ve).The pH at which amino acid beers no net charge(the net charge=0) and therefore does not movein an electric field is called isoelectric pH (pI ,i.e. pH=pI), an amino acid precipitate out of thesolution in its pI.The pH at which amino acid beers the maximumtotal number of charge (the charge= themaximum total number) is known as (pHm)
![Page 41: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/41.jpg)
![Page 42: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/42.jpg)
Amino Acids Have Characteristic Titration Curves
Gly
Acidic pH (pH<PI)Cation
Neutral (pH=PI)
Zwitter ion
Basic pH (pH>PI)Anion
PI = PK1 + PK2 / 2
Gly Leu PheAla Ile TrpVal Ser AsnPro Thr Gln
Met
![Page 43: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/43.jpg)
Amino Acids Have Characteristic Titration Curves
![Page 44: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/44.jpg)
Amino Acids Have Characteristic Titration Curves
Glu
Acidic pH (pH<PI)
Cation (+1)
Neutral (pH=PI)
Zwitter ion (0)
Basic pH(pH>PI)
Anion (-1)
PI = PK1 + PK2 / 2 Asp CysGlu Tyr
Basic pH (pH>PI)Anion (-
2)
![Page 45: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/45.jpg)
Amino Acids Have Characteristic Titration Curves
Asp , Glu , Cys
[PKR=PK2]
![Page 46: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/46.jpg)
Amino Acids Have Characteristic Titration Curves
His
Acidic pH (pH<PI)
Cation (+2)
Neutral (pH=PI)
Zwitter ion (0)
PI = PK2 + PK3 / 2LysArgHis
Basic pH (pH>PI)
Anion (-1)
Acidic pH (pH<PI)
Cation (+1)
![Page 47: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/47.jpg)
Amino Acids Have Characteristic Titration Curves
Lys , Arg[PKR=PK3]
His[PKR=PK2]
![Page 48: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/48.jpg)
![Page 49: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/49.jpg)
Peptides
![Page 50: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/50.jpg)
Peptides
Peptides Are Chains of Amino Acids
The amino acid units can be covalently joinedthrough a substituted amide linkage, termed apeptide bond, acid amide bond
Each two amino acids can be joined by one peptidebonds to form;The part left over after losing a hydrogen atomfrom its amino group and the hydroxyl moiety fromits carboxyl group
![Page 51: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/51.jpg)
Peptides
Ala-Cys
Peptide bonds can be hydrolyzed byproteolytic enzymes called proteases orpeptidases. Proteolytic enzymes are foundin all cells and tissues
![Page 52: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/52.jpg)
Depending on the number of amino acidsmolecules composing a chain, the peptidemay be termed as a:
Dipeptide (containing 2 amino acids units),
Gly-Phe
Tripeptide (containing 3 amino acids
units),
Pro-Met-Asp and so on
Tetrapeptides (4 a.a),
pentapeptides (5 a.a),
Hexapeptides (6 a.a) …
![Page 53: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/53.jpg)
In a peptide,the amino acid residue at the end with a free ɑ-amino group is the amino-terminal (or N-terminal) residue;
The residue at the other end, which has a freecarboxyl group, is the carboxyl-terminal (or C-terminal) residue.
![Page 54: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/54.jpg)
Peptides are named beginning with the N-terminal residue (at the left of the structure),then moving from left to right, the names of all aminoacid residues (except the last one, i.e. the C-terminalresidue) are written by adding the suffix –yl becauseall these are the acyl groups
Ser–Gly–Tyr–Ala–Leu pentapeptide[serylglycyltyrosylalanylleucin
e]
![Page 55: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/55.jpg)
Peptides
Oligopeptide10 more than not
amino acids units
Polypeptidemore than 10 amino
acids unitspolypeptides generally
have molecular weights below 10,000
Proteinhave higher molecular
weights
![Page 56: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/56.jpg)
Ionization Behavior of Peptides Peptides contain only one free ɑ-amino group and one free ɑ-carboxylgroup, at opposite ends of the chain.These groups ionize as they do infree amino acids, although theionization constants are differentbecause an oppositely chargedgroup is no longer linked to the ɑ-carbon.The ɑ-amino and ɑ-carboxyl groupsof all non-terminal amino acids arecovalently joined in the peptidebonds, which do not ionize and thusdo not contribute to the total acid-base behavior of peptides. Howeverthe R groups of some amino acidscan ionize, and in a peptide thesecontribute to the overall acid-base
![Page 57: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/57.jpg)
Biologically Active Peptides
Naturally occurring peptides range in lengthfrom two to many thousands of amino acidresidues.Even the smallest peptides can havebiologically important effects.Consider the commercially synthesized Dipeptide
L-aspartyl-L-phenylalanine methyl ester,the artificial sweetener better known as Aspartameor NutraSweet.
![Page 58: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/58.jpg)
Biologically Active Peptides
Many small peptides exert their effects at very lowconcentrations. For example, a number ofvertebrate hormones are small peptides, theseincludeOxytocin: (a 9 amino acid residues)
![Page 59: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/59.jpg)
Biologically Active Peptides
Gastrin: it is a local peptide hormone producedby stomach (the gastric mucosa), its secretion isstimulated by entry of dietary protein into thestomach, it stimulate the gastric juice.Enkephalins: is a pentapeptide (5 amino acidresidues)
![Page 60: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/60.jpg)
Biologically Active Peptides
Insulin: thepancreatic peptidehormone, whichcontains two polypeptidechains, one having 30amino acid residues andthe other 21, which arelinked together bydisulfide bonds.
![Page 61: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/61.jpg)
Biologically Active PeptidesGlutathione (GSH): It is a tripeptide (3 amino acid residues),which derived from glycine, glutamate,and cysteine.GSH characterized by its γ-peptide bond (between glutamate,and cysteine) , which is not attacked by peptidase), present inplants, animals, and some bacteria, often at high levels, it isfound in all mammalian cell except the neurons.
![Page 62: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/62.jpg)
Biologically Active PeptidesThe oxidized form of glutathione (GSSG), produced inthe course of its redox activities, contains twoglutathione molecules linked by a disulfide bond
![Page 63: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/63.jpg)
Biologically Active Peptides
![Page 64: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/64.jpg)
![Page 65: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/65.jpg)
Nucleic Acid
![Page 66: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/66.jpg)
Nucleic Acid
Nucleic acids are macromolecules thatstore, transmit and express the geneticinformation of a cell, which present in allliving cells in combination with proteins toform nucleoproteins.
Nucleic acids are polymers of a specificsequence of subunits or monomerscalled nucleotides. They are thereforecalled polynucleotides
![Page 67: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/67.jpg)
Nucleic Acid
Two types of nucleic acid are found
a- Deoxyribonucleic acid (DNA)DNA is found in the nuclei with small
amounts inmitochondria and chloroplasts
b- Ribonucleic acid (RNA)RNA is found in cell cytoplasm (90%) and thenucleolus (10%)
![Page 68: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/68.jpg)
Nucleic Acid
Components of Nucleic acidsNucleic acids are made up of three chemical units:
i) Nitrogenous base [purines or
pyrimidines]
ii) Pentose sugar [ribose or deoxyribose]
iii) Phosphoric acid
![Page 69: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/69.jpg)
Nitrogenous Bases PURINES
PurinePurinering
![Page 70: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/70.jpg)
Nitrogen Bases PYRIMIDINES
Pyrimidine ring
DNA contain A, G, C, T
RNA contain A, G, C, U
![Page 71: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/71.jpg)
SUGARS
RNA contain β-D-Ribose
DNA contain β-D-2-Deoxyribose
![Page 72: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/72.jpg)
RIBOSE DEOXYRIBOSE
OH2CH
H
OH
C
C
OH OH
C
O
H HH
C
OH2CH
H
OH
C
C
OH H
C
O
H HH
C
SPOT THE DIFFERENCE
SUGARS
![Page 73: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/73.jpg)
Nucleic Acid
Nucleosides: Nitrogen bases + Sugar Nucleotides: Nitrogen bases + Sugar +
Phosphate group
Nucleosides consist of:
1. Nitrogen base purine or
pyrimidine
2. Sugar (β-D-Ribose and β-D-2-
deoxyribose )Nucleotides are phosphorylatedNucleosides
![Page 74: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/74.jpg)
Nucleoside Structure
SUGAR
Ribose or Deoxyribose
BASE
PURINES PYRIMIDINES
Adenine (A)Guanine(G)
Cytocine (C)Thymine (T)
Uracil (U)
NUCLEOSIDE
β-N-glycosidicbond
![Page 75: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/75.jpg)
Nucleoside
Deoxyribonucleoside
Ribonucleoside
Base
DeoxyadenosineAdenosineAdenine (A)
DeoxyguanosineGuanosineGuanine (G)
DeoxyuridineUridineUracil(U)
DeoxycytidineCytidineCytosine (C)
DeoxythymidineThymidineThymine (T)
![Page 76: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/76.jpg)
DeoxyribonucleosideRibonucleosideNitrogenous base
DeoxyadenosineAdenosineAdenine (A)
DeoxycytidineCytidineCytosine (C)
Nucleoside Structure
![Page 77: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/77.jpg)
![Page 78: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/78.jpg)
Nucleotide Structure
PHOSPHATE SUGAR
Ribose or Deoxyribos
e
BASE
PURINES PYRIMIDINES
Adenine (A)Guanine(G)
Cytocine (C)Thymine (T)
Uracil (U)
NUCLEOTIDE
![Page 79: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/79.jpg)
NUCLEOTIDE
![Page 80: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/80.jpg)
Nucleotide Structure
Adenosine Monophosphate
(AMP)
DeoxyadenosineMonophosphate
(dAMP)
![Page 81: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/81.jpg)
Cyclic AMP or GMP
c-AMP c-GMP
DinucleotideAdenine Nicotinamide= +NAD
DinucleotideAdenine Flavin= +FAD
![Page 82: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/82.jpg)
![Page 83: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/83.jpg)
THE SUGAR-PHOSPHATE BACKBONE
The nucleotides are allorientated in the samedirection
The phosphate group joinsthe 3rd Carbon of one sugarto the 5th Carbon of thenext in line.
P
P
P
P
P
P
![Page 84: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/84.jpg)
ADDING IN THE BASES
The bases are attached to the 1st Carbon
Their order is important It determines the genetic information of the molecule
P
P
P
P
P
P
G
C
C
A
T
T
![Page 85: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/85.jpg)
DNA Structure and Function
DNA, abbreviation of deoxyribonucleicacid, organic chemical of complexmolecular structure that is found in allprokaryotic and eukaryotic cells and inmany viruses.
DNA codes genetic information for thetransmission of inherited traits.
DNA serves as the genetic material for cellsboth prokaryotes and eukaryotes.
![Page 86: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/86.jpg)
DNA Structure and Function
DNA is located in the nucleus separated
from cytoplasm by the nuclear membrane
DNA present also in mitochondria (less
than 0.1% of the total DNA)
in chloroplasts of plants
![Page 87: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/87.jpg)
![Page 88: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/88.jpg)
Nucleotides are joined together through thephosphate group of one nucleotideconnecting in an ester linkage to the OHgroup on the third carbon atom of the sugarunit of a second nucleotide, linkedcovalently by 3’,5’ phosphodiester bond.
This unit joins to a third nucleotide, and theprocess is repeated to produce a long nucleicacid chain "Structure of a Segment ofDNA”.
Primary Structure of DNA
![Page 89: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/89.jpg)
The final nucleotide has a free OH group on
the 3′ carbon atom and is called the 3′ end.
The sequence of nucleotides in the DNA
segment would be written 5′-dG-dT-dA-dC-
3′, which is often further abbreviated to
dGTAC or just GTAC.
DNA is negatively chargedmacromolecule
Primary Structure of DNA
![Page 90: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/90.jpg)
Primary Structure of DNA
![Page 91: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/91.jpg)
THE DOUBLE HELIX (1953)
Secondary Structure of DNA
Watson and Crick model
![Page 92: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/92.jpg)
The sister strands of the DNA molecule run in opposite directions (antiparallel)
They are joined by the basesEach base is paired with a specific
partner:A is always paired with T(two hydrogen bonds) G is always paired with C (three hydrogen bonds)
Purine with Pyrimidine
Thus the double strands are complementary but not identical
The diameter of the helix is 20Aᵒ
Secondary Structure of DNA
![Page 93: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/93.jpg)
Watson-Crick model for the structure of DNA…
The diameter of thehelix is 20Å
Adjacent bases areseparated by 3.4 Åalong the helix axis andthe helical structurerepeats after tenresidues on each chain ,that is
At intervals of 34 Å
34 Å
![Page 94: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/94.jpg)
DNA IS MADE OF TWO STRANDS OF
POLYNUCLEOTIDE P
P
P
P
P
P
C
G
G
T
A
A
P
P
P
P
P
P
G
C
C
A
T
T
Hydrogen bonds
The ratio of purineto pyrimidinebases in the DNAis always aroundone (1)
G+A : T+C = 1
G+A / T+C = 1
G+A = C+T
![Page 95: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/95.jpg)
WATSON & CRICK BASE PAIRING
T A
C G
![Page 96: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/96.jpg)
Tertiary structure: Is the supercoiling of DNA doublehelix which is winding, bending and twisting to form morecompact shape.
DNA molecules are either linear or circular
In circular DNA, the ends of the DNA are joined tocreate a closed circle with no free 3′ and 5′ hydroxyl andphosphoryl groups .
The DNA in human chromosomes are linear
Tertiary Structure of DNA
![Page 97: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/97.jpg)
Tertiary Structure of DNAA DNA molecule
without any superhelical turns is knownas a relaxed molecule
Supercoiling isbiologically importantbecause:A supercoil DNAmolecule has morecompact shape thandoes it in relaxed state
![Page 98: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/98.jpg)
![Page 99: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/99.jpg)
![Page 100: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/100.jpg)
Functions of DNAi) DNA is the genetic material capable of storing andtransmitting genetic information (hereditycharacter) from parents to their off springs.ii) All cellular functions are under the control ofDNAiii) DNA acts as a template for the synthesis ofmRNA by a process called transcription. The mRNAthus produced helps protein synthesis in thecytoplasm by translation in combination with tRNA
iv) DNA acts as a cofactor in the synthesis of ATPwhich in turn is necessary for the production of RNAand protein in the nucleus.v) DNA produces mutations resulting in new
DNA mRNA Proteintranscriptio
ntranslation
![Page 101: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/101.jpg)
Chromosome: is a large single double helix DNAmolecule containing many genes and functioning to storeand transmit genetic information.
Nucleic acid
![Page 102: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/102.jpg)
Gene: is a sequence (segment) of a chromosome which codesfor a molecule that has a function (polypeptide or protein).
Genome: is the genetic material ofan organism.
Nucleic acid
![Page 103: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/103.jpg)
Nucleic acid
Satellite DNA: are DNA segments ofhighly repeated sequence of about 10 b.p.(consists of a single sequence repeated manytimes over)
![Page 104: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/104.jpg)
Nucleic acid
Plasmids: is a small DNA molecule within a cellthat is physically separated from a chromosomalDNA and can replicate independently.
They are most commonly found as small circular,double-stranded DNA molecules in bacteria;however, plasmids are sometimes present in archaeand eukaryotic organisms. In nature, plasmids oftencarry genes that may benefit the survival of theorganism, for example antibiotic resistance
![Page 105: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/105.jpg)
Nucleic acid Recombinant DNA: joining together of DNA molecules
from two different species that are inserted into a hostorganism to produce new genetic combinations that are ofvalue to science, medicine, agriculture, and industry. Sincethe focus of all genetics is the gene, the fundamental goal oflaboratory geneticists is to isolate, characterize, andmanipulate genes.
![Page 106: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/106.jpg)
1- Denaturation of DNA:2- Renaturation (Annealing):
Physical Properties of DNA
![Page 107: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/107.jpg)
3- Melting Temp (Tm):
Physical Properties of DNA
![Page 108: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/108.jpg)
Physical Properties of DNA
4- Mutation:a. Exposure to U.V. light, X –rays or γ –rays causes
alteration such as adjacent T=T dimerization.
b. Deamination of nitrogen bases by exposure to nitrouscompounds as HNO3 and NaNO2 converting:
Cytosine Uracil + NH3Adenine Hypoxanthine + NH3
c. Xenobiotics (nitrogen base analogues) such as : Caffeinemay replace Thymine (T)
d. Alkylating agents: agents that can add R- groups suchas –CH3, -C2H5, to the nitrogen bases altering theirmolecular structure.
![Page 109: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/109.jpg)
![Page 110: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/110.jpg)
RNA is a polymer of ribonucleotides. Thus, it is polyribonucleotide. It contains four types of ribonucleotides viz
Adenosine monophosphate Guanosine monophosphate Uridine monophosphate Cytidine monophosphate
RNA Structure and Function1. Primary structure
The mononucleotides are held togetherby 3′,5′phosphodiester bonds and thebase sequence constitutes the primarystructure of the polynucleotide
![Page 111: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/111.jpg)
RNA occurs as a single strand molecule. There isinternal hydrogen bonding within the chain tokeep it in a coiled or helical form.
The coiled strand folds back on itself and thusacquires double-stranded characteristics
RNA Structure and Function1. Secondary structure
![Page 112: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/112.jpg)
Difference between RNA and DNA
![Page 113: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/113.jpg)
Difference between RNA and DNA
RNADNAGenetic material of somevirusespresent in cytoplasm
General genetic materialpresentpredominantly in nucleus
The Sugan moiety is riboseThe sugar moiety isdeoxyribose
Exists as single strand helixExists as double strandhelix
Consists of adenine guanine,cytosine and uracil
Consists of adenine,guanine,cytosine and thymine
There are three types ofRNA
There is only one type ofDNADenatured on heating
Stable towards heatDenatured on heating
![Page 114: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/114.jpg)
RNA Structure and Function
Three Types of RNA
1- Messenger RNA (mRNA)
2- Transfer RNA (tRNA)
3- Ribosomal RNA (rRNA)
![Page 115: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/115.jpg)
Messenger RNA - mRNA is a copy of the geneticinformation that was transcribed from the cell’soriginal blueprint, DNA.
This is so named because it is the type of RNAwhich carries message for protein synthesis fromDNA (gene) to the sites of protein formation(ribosomes).
Only about 5% of total cellular content of RNA ismRNA.
mRNA is formed from DNA by transcription in thenucleus and then migrated into the cytoplasm andattached itself to a number of ribosomes
![Page 116: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/116.jpg)
Messenger RNA The 5′ end of mRNA is “capped” by a 7-methyl-guanosine triphosphate (m7 GPT).
- A poly(A) “tail” attached to the other 3′ end of mRNA. Thistail consist of series of adenylate residues 200-250nucleotides in length joined by 3′,5′ phosphodiesterbonds
FunctionmRNA serves as a messenger by carrying genetic informationfrom DNA to the sites of protein synthesis (ribosomes).
![Page 117: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/117.jpg)
Transfer RNA - Transfer RNA constitutes about10-15% of total RNA of the cell
The Amino Acid Suppliers: tRNA is also part of theprocess of building proteins. Like a little truck,tRNA brings the amino acid to the ribosome. Whichamino acid it brings depends on which was coded forin the mRNA instructions. At the ribosome, theseamino acids are joined together to form proteins.
or arms.
Transfer RNA is the smallest of the RNAspecies containing approximately 75 nucleotideswith a molecular weight of 25,000. It has acloverleaf structure with four attachement sitesor arms.
![Page 118: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/118.jpg)
tRNA structure1- The acceptor arm2- The D arm3- The anticodon arm4- The T ψ C arm5- The extra arm
FunctionThe rRNA molecules serve as adapters for thetranslation of the information in the mRNA intospecific amino acids for protein synthesis
![Page 119: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/119.jpg)
Ribosomal RNA -The Protein Factories: Most of the RNAin cells is part of the structure of small cellular organellesknown as ribosomes, the protein factories of the cells.
Ribosomal RNA constitutes about 80% of the total RNA ofthe cell. It occurs as nucleoprotein in the minute roundparticles called ribosomes located in cytoplasm
Functionsi) rRNA plays a prominent role in binding m-
RNA to ribosomes and its translation totRNA.
ii) An rRNA component is found to perform thepeptidyl transferase activity. Thus it acts as anenzyme called ribozyme.
![Page 120: BIOCHEMISTRY (1) 2018-2019 new - scbaghdad.edu.iqscbaghdad.edu.iq/sc/files/lectures/bio/biochem.pdf · ,rql]dwlrq %hkdylru ri 3hswlghv 3hswlghvfrqwdlq rqo\rqhiuhhɑ dplqrjurxsdqgrqhiuhhɑ](https://reader033.vdocuments.us/reader033/viewer/2022052009/601e405af5f6bc3ba92c8412/html5/thumbnails/120.jpg)
جاحمع تمنياتي بالموفقية والن
صبا زهير حسين. د