Lecture4-Ch3-Sept10-2007

Lecture4-Ch3-Sept10-2007 - A few diverse examples of...

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Unformatted text preview: A few diverse examples of proteins: A musele preteirr: We’rereeler‘s by David I:E'Izuznrlsell Macruphage (“white bland cell”) Bland serum “Macmphage and Bacterium zpuupmx” Banterlum Watercolor by David 5. Goodsell, EflflE The 20 standard 211an acids Edi—can mfi-c—H SEW fiIPD Latina Alumina Hilfid‘uu Carbflxyl gmup $00 Hgflr—(lj—Pfiifl m 2 R “R” group = “side chain” (pt-131; 11011130131": acidic: basic: ...) [I Cflfl' {IUD Hat} 3 " “ hIIig I'H.5. {.‘H:: L-Alanina Il-a‘tlanine 1C00‘ C00 High-9Q: ~H H—Qafiag 3CHI§ L-Alanina D—Alanina Line up carbaayl 35 R gl'flllpfi, with carbaayl an trap. L=NH3+ an lafi D=anflgfl Which farm meats in natural pratajna? Why? What wauld happen to a pratain with the athar fajita? Titratifln of 111111110 acids ‘1‘ ‘1’ HQ —{|3 E }— [II HEN—{ll—H ilHN—EIJ—H R R N nninnic E w itLerinnic farm Farm pH ZWittEI‘iflfl = “hybfld” 0r dipc-lar 1011 What‘s special flbflflt the raglan marked p1? ' G M l 15 2' DH" 'E'FJUI'L'HIL‘I‘IH' p1 = iecelectric pcint = the pH at which the net electric charge cf the Inclecule ie eerc C311 find hen] the titreticn emcee-- The 20 standard amino acids : .1 i! !' 5 1 PM; and Canadian alarmist-d III-Ht 1h- Et-udml him lucid: pH. “in: flan-rum pl' III. HM m T .Ill'fl uld nil-III fl]. [—cném l—m] III M] pl lndu‘ In mull-II ml- Hmh Hum-u: H W Ely: I1|l Elly 5 1'5 2.321 9.60 5112' D --1 2.2 lullmnn All in 2H 2.34 £1.59 5.11:! 1 E 2.3 Halli-t 'n'nl 'I' l1.'-| 2.32 ELIE-'2' 5.9? 4 2' +1.15- LELL'IIIE- Lulu L I31 2.35 '-J.E|] 5.9! 3.! 9.! Mlmulflfl' 1h! | E31 2.3-6 9.63 51}? EM:- 5.11 h'lwmmlnl: “In: M I49 2.21:! 9.21 $- 24 1.9 2.3 Jim-ruin: ll [run-I thn-IIIMmIr-e- PM F I65 1.32- EI 13 5.42! 2' B 2.1! Emma Tgr ‘I" ifll 2.2‘U I‘JI.11 lilflu' 5.5-5 1 3 3.2 Tfip‘lnfllm Trp 1H Eli-I1 2.33 9.39 ".139 DE Ll Full. Mill! 3 W SHINE Se: 5 IIer 2.2I 4.15 {- EiE-I [‘J E! {-1.3 F'rnlln-I: Fru- F' Il‘n- 132'? 111E121- E»_-lfl 1 E b.2 Thunnunn Thrr T I 1'? 2.11 9.52 5 512' D .1' .. twin-inl- Crl E I 2'] 1.915- 1l1l.2fl 3.13 E: M .2' 5 HI handgun km N I312| 2122' 3.513 5.42 I .3]:- 4.3 GluLnrnl'I-I llln fl l-IIE- 2.1? 9.13 5.55 .15 #2 Push]; Hui-lad R rum- Lnum L3,":- H HE- ;Hfl 3&5 111.52 '2 21 3 E} 5.1} Hllflldll'l-IJ II-ln H IEI-E- 1.2K 4.1 1' 11.1211 I ‘11? .1 :2 2.3- .1— l-Iulnir-n in: R IN 2.17:r '2.II|-l IPA-Fl 1'?! TE- 4! ‘5- 5.1 will! mm it m imam-tail: #5:: El [32- 1.63 9.1-1.1 2.4211 2.2 n" 3.1- 11.3 GIL-Lamale Glu E I“ 2.111l 915 2 41.1”; 3.22 3.1% 5.3 ‘P. 51:11: fill'l'lhlnlflfi hydfibphdalcllj and hydi'fl-phllrtll} nf FI‘ slumps. III tun bu Land in Immune Il'll lie-nan ¢If HI afmnn and tn- and: are man-anus amirartrl'runl: I: 11:11:11: or .1 I'Iydrtlpl‘mhil: “want-Mm E I 'nlunfl. Sen Chant-r 12'. Frau-n Min. 1. I. DEIIIHIHI. R F. 11952] J Mar. 3521f 1H11flfi 532. Huang: ace-manna In My 1150 pm'lalna. Flam DM'IIHB. RF. [1935” Endundar-clfl- In mum mqmncu. In F'rum'cfian {If H'EI'IE'I'J'F Shrucmre and ME Humble: u! Phi-Iain Emmi-mum tFnsman. £111- :11] F'alenum Frm. HT. pp. 5994-23. Why is Histidiiie cansidered positive at pH 7‘? maximum u.th mi. Mmllni Eula-1pm.]: hjfllflfll! pl; 2 1 I a m II H' H' ' + Wat-1m 1—“"% flHa—m ma—Nfla % E-‘Hq-bfl’li H' H' mm: WM _ 11mm: [Jr-fills The firms-Ina [hr an mrlmyl 31'an huh-um dfl. nah-find yultl pH. . 2.3-1 : Elapuuhu'm between Thi- Hmiun Era-JP Ind this Elana-“rim pram! lwm II'HI pl}, fitn- umme gram}. and unlawful; Emma hwer-the PH. bistabl- litim ma mitts-rm - + nmin-n group in all-nut 10.5. H" E H—Eflw- n-fiiinu- lufljlillydnul at, - m 51mm union mum in Eh! 42-1-th gmup pull Ell-E1113“! may [run [ha “in: gmuy, WHERE “I! [Wm Titratien ef glutamate prediete ite eharge [Tl-ml Hm Wm Hm Ii-.[~J—Lfli I-|_ fi—tl.‘I-l H S—CH [LEE—{IJH ("IL (I‘ll. ['H, I'I‘Ii L‘l-Lj ea; m1: Elli (EH; I'HHH {I‘HHH [1.th I’I‘HIJ m Glutamate Calculate the 131 ef glutamate H} g 1 I] 21} 3-11} {11-1— {equivalents} {a} TitratiC-n of histidine [_'l}i}H E'HH ['Hl} l._'{JH II N—tI'TH l1 I'd—{1H II .N—t'fli Elli—H! f'H._. (“El-L. ttu._. _ 1"H._, Find the 131 if histidine. What’s the charge at pH 7? U ' m ' 211 3.0 UH‘ {aluivalentsr {b} Negatively charged R groups $00- $00— HBN—(lil—H HEN—$—H (III—12 (EH2 COO— COO— Aspartate Glutamate Positively charged R groups {1300 {IZOD {IZOD Hfifi—(E—H Hflfiflilj—H HAN—{Ile {EH2 IIJHa {EH2 CH2 CH2 i— H | | CH2 CH2 4' I I —N tng rim 3 +NH3 l NH2 Lysine Arginine Histidinfl H (lilac: Hgfil—EI—H H Glycine. Nunpular, aliphatic R grflups {IUD CDC!— | U—fl C” 1 H1?” EGH CH3 2 I I 2 H20 CHE Hflrir Alanine Praline $Dfl' $90— Hgl‘IJ—IClI—H Hath—LII—H {1mg H—(EI—EH3 ICH CH2 H CH3 GHE (EH3 Isnleucine [EGO ' Hgfi—{IJ—H CH / H CH3 CH3 ‘Jaline cau- Habi— $112 CE; I S I CH3 Methinnine Arnmntin R groups (1700‘ (INDO— (€400— Han—n41 HHfiI—{lj—H Han—(1:41 CH2 CH2 CH2 I =CH H OH Phenylalanine Tyrosine Ti-yptnphnn 2 cysteines can farm a “disulfide band”: Cysteine Cysteine + H3N — {ll‘flfl' {llflfl' + [EH HgN—IIZH $HE 2H+ + Eu' {EH2 SH “I S I 211* + 2;: | ‘EHE ‘EHE {IIH—Itl {IJH—ITJ CDC!" (3130' P0131" Cystine Nflflpfllflf Same flDflStflfldEfl'd amino acids H @c if”? can: L111 [:113 CH cm H,“ {:H—[ru-r: a. [hf I NH i H K a H T-L'arbmu'gi ulanaatt- 4-Hydmxrpmiiml mmE cm- H;.r'~:—{'.H.J_c1 H—ffHE— “Hg—I :H—{rn-u I H21: fiH” L | HHILIH fawn-“Him m“ ficflih‘l‘d maxi—Quad :1: [311a]: NH—(THJ—EH;—EH3 — EH-,— {TH—Em:- it, If! 'N] L. Hull: ma- E-N—Hnfl'tjllyl'lnn Ik-nmuaine :Hg—t“ H—{Ti in 'M L. fir-Inn: awn-trim HafJ—UHE—GHE—EHE—{EH—Uflfl‘ +NH3 Dmi thine HEN—CHPIJ—EHE—GHE—CHE—tEH—Gflfl' 41) H "NH3 Citrulline Absnrptinn Spectrnscnpy Illtf‘t‘tfiitj.‘ ul' InntI:-n.-3itj-r nf intitlunt transmitted light . -: light In 1 I ! A = :flflllt 1+ _ Lamp :‘Ir’ltmtrt‘hrtrmfltnr “Ht-*L'tnr ttrlentlitt-r nf hat: I'hjng EiIJtT tE‘E Lambert-Beer Law (3150 Absnrbance =A =1ng (IQ/1) = 3 C E f Ctncentratinn {M} Mnlar extinctinn coefficient {L flimnl 15-: cm}} What range can A adapt? Turptnphan £5 tyrosine absnrb UV light Tryplnphan Ahsnrbn 111:0 U l - I L - I - . . 2'31] 2-“) fit! 2151] BTU 23D 29!] .'].|]-[|' SID ‘I'Ir'm'vlfinhrll'J 1 I1 m1 Peptide band fflflflflflflfli 131 If If Hfi—CH—C—OH + H—N—CH—COO‘ H 0 H30 HE“ R1 H R3 + I I | HgN—CH—C—N—CH—COO II 0 L‘liEUii II-I 11 III {YT-Hi H L1H” H (3.11., J H”—I‘E‘N‘f‘ii‘N‘“?‘ii‘““i‘ii‘““i‘m H D H D H D H D H Amine-d Cerhexyl- terminal end terminal end What’s the eequenee ef amine eeide? - the eequenee dictates the physical prepertiee (ehergefhydrephebieityfeetifim’ete) ef the peptide iiJEJiE: 5—2 Melesular Data an Esme Pinteins Carts-chime 5 {human} Fiibnnuelease A EDWIN! penerEers} LjI'EGIin'I'I'IE [egg white} Myegleein (equine heart} Enymntrypsin {bovine pancreas) Ehyn'ietrypsinUEEn [basil-lei Henmglnein inumani Serum albumin {human} Hemkinarse {yeast} FIN-A nelyn‘rerase (E. {refill Apelipeprntem E {human} Giutemwe syntheiese (E. mm mm {nun-Ian} Muleeular weight lflflflfl 13.1042} 13.931] 16.3% 21.500 22,300 fidjflfi 63.5042} lflEflU-D 459.300 513.000 E:1'E:IJ.'JFE_'JIL'JI 2.993.090 Humbes fll' residues 104 124 129 153 24]. 245 534 509 95'2 4.153 11.535 5.523 25.925 Humberef Pfl'i'FEPt'd'l chains l—I I—IMHmMF—Ihl—ImI—ll—Ih—II—l The levels of pmtein structure: Fulypaflide chain Amemblad subunits Preteine e311 be medified te inelude ether ehemieal greupe beeidee amine eeide (“preethetie greupe”) a i;. Cenjugated Proteins files:- Preethetil: gmuplis} Example Lupeereteine Lipids rig—Lipepretein ef blend 1— Alsn pflDnPI’D’EEifl EIyCDprflIEIHS Carhehyeretee Immunegieeulm G {causes mad CW disease) Pheephepreteme Phesphate greupe Eeeein of milk .1— HERE’ important msigmal Hemepmteine Heme {iren perphwin] Hemoglebln tmd‘l'itiflnm'ieus Flavepreteme Fiewn Iiueteetldee Sueeinate eehydregenase Metallepretems lren Femtln Eme Aleehel dehydregmese Cetenum Caimeduim Melybeenum Dinitregenase [Sleeper Praetmyani n ...
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This note was uploaded on 11/30/2009 for the course CH 55655 taught by Professor Marcotte during the Spring '09 term at University of Texas at Austin.

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Lecture4-Ch3-Sept10-2007 - A few diverse examples of...

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