Handout 3 - Amino Acids & Proteins
Handout 3 - Amino Acids & Proteins CH 405/505
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Popular in Chemistry
This 7 page One Day of Notes was uploaded by Evan Roberts on Friday January 23, 2015. The One Day of Notes belongs to CH 405/505 at University of Alabama - Tuscaloosa taught by Timothy Snowden in Spring2015. Since its upload, it has received 121 views. For similar materials see Medicinal Chemistry in Chemistry at University of Alabama - Tuscaloosa.
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Date Created: 01/23/15
than Common Amino i i 7 7 i 77 7 m mw mu 7 V flu11 PM In Patrick 11 Introduction quotWWWquot A E M A u an on om t0 Medicinal Chemistry 5e Wquot quot39 1 liltinguni n m m MI 1 1020 MI IN A humming Q I Iquot 9139 I n gt 139 1 er In gi D o 7 inl iilul Jill G n IFIFAIirn 1 on m 39I Table 261114 1046 lelc 261 m 0 Common Amlno Add n nai zlm minim W i39 EH Lquot 2E1 a PRIZE I m iaE Bf m am 7 m i m w m 1 quot 39 39H Wquot quotE W 3quot H u h n jiiiml Milii llll JEFII I39HTIIli 39HII J39 JII t Inn It I m I aquot w I I 13 mag fail I no no r I V 1 H Erin in Thyemit Tm I 119 m 910 MO V 3 H3 7 V gt I A Iquot m Flix fiwx a E quot1 m 911 a 574 Fv39 whwb w tin H Imawrull In W M LII 9 I M I ffl rat jrli in l wining 391 13m 1y 139 m m 911 1007 uq P I I l I was no Iquot In vuln w v m m u quota TabII 16quot p 1046 Table 26lc p 1047 Auidlc Amlnn Acids Ll when N Iquot W I f 1 k W qMW m 27 Amino acid three and one letter abbreviations wmnemonics I in O 0 lullrnk arm lu a I47 133 i39k cr z 9 967 425 32 1 Iii quotiliil r llninu I ids I V Len L Leucine SEI39 S Scrine quot 39 wew ille I Qtaminc Amulnr m u m quot1 H a or I an om mm um Ala AAl nlne Lys K Lysine Thr T Thrconine 1 ii quot11le Arg R Arginine Glu E Glutamic acid mnemonic hKesme r mnemonic Trp W Tryptophan Hlsrlillm an H I55 are r m 917 am 7 Asn N Asparagine gluEtamic Met M Methionine mneTonhic W Wyp op anw o Il39il Ill quotf H As 39 o i l p D Asparhc aCId rings aquot e V nie si mnemonic asparDic Gly G Glycme fmi lc39ylalamne all I 39 39 We l1quot 3954 llquot ll w 11 us 15 974 Cys C Cysteine His H Histidine Fenylalanme Tyr ijmsme H mm quote I lsoleucine Pro PProlme Val VValIne may FLR 5 a 1 Sm conuaH n aw WQ NND ebb cow dealth 3392 From M 4 Ctquot 7 509 Dc Lag h drw acornm Rigel8 12 Chain wt wage cmnz of Scam a 4366 gt5 gtC MMMS T do if u R i h r4 f 39 H De H ui a 39l of Mun 39 Examples of nonstandard amino acids 39 g 39 ioteida uNH2 groups fig i r a r 5 cu e aNHJ at 0 Side Chains a physiological pH illnllHllIllllllrl lli39l39llf39llr m carbons 5 V 393 39 0 w a C Notconsndcrcd HSe o charged because will quotquot L 1 li Ey I H u 39 aquot l 391 lll hi H be part of peptide Summoth Sec or U Found in several human enzymes if I ll II Hula 39 HE J L39 1 my 1r 7 Him in yAmlnolmtyno Hommmlm Thyroulm sold quot Rituals INF 3 39 Amide bonds The oathelix aHellnl backbone Position of residues Hydrogen bonding between peptide bonds 5 Cl Tm g on macaw Residues backbone or quotchain39 Peptide Residues xiii 36 aa tum I gt 39 Represented ribbons cylinders or rockets onIlehces do not congeln Pi O Zn 3 39 39 r I r Pr r l a r r 1 Sheets BeShea ts THEY RE lgl H n E I gum y H quotmm WHH 3 39UOHIHHCH quanta quot dbquot hr H draw 63 Bturn Pro often in aa 2 or 3 of Bturn a i 39 539 I bumblulmhumla mm j 339 i ocHelices may have hydrophilic solvent exposed or hydrophobic residues protein interior 39 BSheets are typically rich in hydrophobic residues on at least one face Loops connect 0Lhelices and Bsheets vary widely in conformation typically timberw l Wand aa 31 ng chums exposed 395 r ra do l sections of peptides or proteins with a 391 U 3 J structure May be fully or pa rtially solvent exposed or in protein interior A ohlln 21 unlul 5 chain in units 1 rfjr at I 0 Common to extracellular but not Intracellular proteins 39 1 1 Lin f if i quot Irmyav vahrh araIIa yaw arrlmuETrsEllnlabsElui39aiisrl lnln laMn S i l l S IllliLaLI CyaGlyr arHlaLauatlal lua llaLatirTynLauiWIJ w lly 1 dili Killl quoti39 l u an thnursegrillTwanmahnpoly i triumphant 39 howl listhd 11 I Irancc s5 iiiII Stmetwre elf Patrician ass Elizabetha m can a 1mm Fibrous Globular Tetramer 2 i amp 2 Subunits Spa 39 at Structure tar Muti s Motifs are specific arrangen ients of as FCK 0 quot 7C ii elements commonly found in disparate proteins 555 i o b0 Extremely common Tito antiparallel beta strands connected by a tight turn Omega loop Loop in which the residues that make up the beginning and end of the loop are very close together Liz labgm 41th Alpha helices b und by a looping stretch This motit39is common in transcription factors ti Zinc nger Two beta strands with an alpha helix cnd folded over to bind a zinc io Important in DNA binding proteins 7 Ex 39 Extremely common 3 three consecutive amino acid residues usu ll backbone NH form an anionbinding cavity H M 39 Extremely common 3 consecutive amino acid residues usually backbone CO form a cationbinding cavity f ti Yquot Y l39 l l l W ramwin lt8 mum gnu39 139 39r 39IIVUV luluil Irpulllv intllullam I W Vgn llquot Wul Irllaiqtlmm quot Hymngen building Inlerhllnlh Inna hum1mg inteuninln flittiitl Lilli sillltljl i itIntl1lilitiii H ii ithi ll l i li L in la It it if Protein domains are sufficiently stable to exist and function independently of the rest of the protein structure May exist as 5 domains or Q a grj domains 99 regulatory and catalytic Lin her through I rifw lijl riggil ifp h I t 1 I14 1 Found in many enzymes often as a combination of regulatory and catalytic domains as 512 s 1quot Dome u Midi proteins such as enzymes and some Very common in 7 i 7 DNA binding proteins but less common in other proteins rim itquot Will Inlcrullmu f 39 A a 39 ihsilnagphmq 39 quotV hibe Must have complementary f ugum39 to of humy Ilmlun u39 flI Mini IIIullliirl chain Mornth huhquotIll iiililnln H liilaiii niilnilrlu imtl n illllllilllllll Trms part I em hiii Prawn SubJed 5 7 have a nor peptide group ie a prosthetic group covalently attached that helps impart inchiol uh39 1 Examples hemoproteins lipoproteins glycoproteins Heme prosthetic group Pressing Feminism IE h i Emit a of largest class most bio0gica chemical reactions are enzymecatalyEred 5 HUWW provide strength and elasticity eg collagen in bone keratins in hair elastin in connective tissues actin in muscle tissues r 7 7 ILW control physiological activity of proteins or other biomole les eg hor ones neurotransmitters transcription factors Transport and Traf cking shuttle nutrients proteins or other biomolecules to into within or away from cells Storage store metal ion and amino acid reserves eg ferritin stores iron 1 Protective protect from infection or structural damage eg antibodies thrombin I Most ensyrnes end in 33213 while mssi other classes of protele Brit in T s 39 5 EnZymes life S catalySts Nell Topic Review of Enzymes and Receptors life 3 communication system lnlro Io Enzymes as Drug Targels