Class Note for CHEM 490 at UMass(29)
Class Note for CHEM 490 at UMass(29)
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This 20 page Class Notes was uploaded by an elite notetaker on Friday February 6, 2015. The Class Notes belongs to a course at University of Massachusetts taught by a professor in Fall. Since its upload, it has received 15 views.
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Date Created: 02/06/15
Outline Fri 73009 Noncovalen39r Interactions Ch 1 Wha r s rabilizes The DNA double helix Covalen r bonds delermine sequence Noncovalen r inlerac rions much weaker Elec rros ra ric phospha res EFFec r of dielec rric Hydrogen bonds base pairs Dislance amp geome rry Compeli rion wilh waler Van der Waals base slacking Hydrophobic inlerac rions base slacking En rropic eFFeC r Reasoning abou r impor rance lo slabili ry Reminder all lhis happens in The cell Chemical proper ries de rermine Func rion DNA example 4 bases Form 2 base pairs via H bonds AT amp GC Same sizeshape r in ro double helix Sequence encodes inForma rion Unique basepairing makes copying possible Today gtNoncovalen r in rerac rions eg H bonds Weaker rhan covalen r in rerac rions Makes assemblydisassemny possible in mild condi rions eg For copying DNA Many roge rher s rabilize unique 3D s rruc rures eg DNA double helix gtAcidbase chemis rry DNA duplex amp double helix I W m 39M N sL am H Auedmo pue uzmaalj H m 002 a quot00 nuns 39Kuswa L12 019 Y 35mwa 61 al I lt1 no 39 WRMJ MNW 5 04 o ewue viANe 7 o g quot Covalent bonds CC ESQ wmogmvm O woo quot q H CQ 7 30 Noncovalent interactions H H 439 6 I I C39e quot3 N 9 FE 0 IL 39 39x 39139 Chargecharge interaction 40 to 200 kJ mol 1 I H H v A c i iH Hi Hydrogen bond H H 2 to 20 kJ mol 1 Wis interaction 04 to 4kJ mol 1 CH H C 2 2 Hydro hobic interaction Horton 3 to 10kJ mol 1 30 I x c39i WH3C Chargecharge interaction 40 to 200 kJ mol 1 E kj jl 3 i D 3 I hf Mb k 39 vg XL wax 13 Z k W Q Sixth Edition 2007 W H Freeman and Company 0 O O o O o o o o o P B P o 0 o 0 o o Unnumbered figure p H Biachemislry Sixth Edilia 2007 W HFIEeman an d 00 Seam w PH 17 hmJLP H OEH N H C Nc c c c qC N HN C39 H NC C N N H O Guanine H Cytosine H I I I n z o z o Unnumbered figure pg 10 Biochemistry Sixth Edilian re 2007 w HFreeman and Company S a W S 01 me kahlor D vw WWFW C H H C IH HI 59 H H 939 H H I H H 0 van der Waals interaction r 04 to 4kJ mol 1 Vhller W643 LU A AA N qu WW 39 ZVAU mu Q Absw Akhv o cmmHug 14 A 9 29122 114 I NH2 NH2 N H o o H l N N N H H CH3 l H N N N A 0 I l N N H N I N NH2 0 N H 10 Qidvs w 0 Hydrophobic effect vimleme rowx Hydrophobic interactio 3 10 ET a hydrophobic bond Hydrophilic cwr eoL OW Sab wf GUN 2 0 t f Hydrophobic WWPM 3 g aiming Mimif quot amphipathlc amp i 1 ipmoct LMJM MS bow h ophb39oig 39 Il examples S AVlhoiim uc L Ilpld 01 Adam x 11 Hydrophilic 2 quothead group 3 H70 p503 3 Hydrophobic 4 alkyl group Q szg be quotFlickering clustersquot of H20 NSWV moleculesinbulkphase R3 Ogl BM Highly ordered H20 molecules form quotcagesquot around the hydrophobic alkyl chains 12 Clusters of lipid Dlspersmn of molecules lipids in H20 Each lipid molecule forces surrounding H20 molecules to become highly ordered Only lipid portions at the edge of the cluster force the ordering of water Fewer H20 molecules are ordered and entropy is increased Micelles All hydrophobic groups are sequestered from water ordered shell of H20 molecules is amp minimized and entropy 3043 is further increased W Palm szdls Soldla l ie 13 Which noncovaent interaction contributes most to DNA or protein stability a H bonds b Hydrophobic effect 39 c Chargecharge C van der Waals For each one why or why not 36 c G plUYAey G sswn M44 ve W Duel 15 fjmwr L 11 LIFe 39 149 IS 51W 9 1 compCl ex WA and 9515 I crowded 1 Many Fundamentally amp f medically impor ranf 39 processes donquotr r 39739 occur in i solufions b 39Md m 6 Moe 39uAVIND Ava w David Goodsell s depiction ofEi Cali cell 16 Outline Fri 73009 Acidbase chemis rr39y of ionizable gr39oups Ch 12 Signi cance of ch1 deducing species presen r HendersonHasselbach equa rion pH ex rremes disrup r s rruc rures of DNA pro reins Buffer solu rions o o N NH pKa97 N N H H N N NH N N NH 2 2 Guanine G Unnumbered figure pg 15 Biochemistry Sixth Edition 6 2007 W H Freeman and Company 808 27 0 06 ET 2204 c3 3 5502 LI 0 I I I I I I l on O C Figure 146 In m my u i 435 lgt 19 w quot D 3 lOkoMWWe A 91 0 K A D BOHWLMQ A
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