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<p>what motif? </p>

what motif?

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32 Terms

1
<p>what motif? </p>

what motif?

helix-turn-helix, all alpha, active site is C alpha

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2
<p>what motif? what active site? </p>

what motif? what active site?

4 helix bundle, all alpha, top is active site

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3
<p>what motif? what active site? </p>

what motif? what active site?

globin fold, all alpha, active site at globin

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4
<p>what motif? what active site? </p>

what motif? what active site?

hairpin; antiparallel beta; active site at the curve

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5
<p>what motif? what active site? </p>

what motif? what active site?

up and down; antiparallel beta; active site at the top

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6
<p>what motif? what active site? </p>

what motif? what active site?

plain barrel; antiparallel beta; active site in the center of barrel

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7
<p>what motif? what active site? </p>

what motif? what active site?

Greek key motif; antiparallel beta; active site at the top

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8
<p>what motif? what active site? </p>

what motif? what active site?

jelly roll, antiparallel beta, active site at the top

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9
<p>what motif? what active site? </p>

what motif? what active site?

saddle, antiparallel alpha and beta, active site on the alpha

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10
<p>what motif? what active site?</p>

what motif? what active site?

zinc motif, antiparallel alpha and beta, active site on the zinc ion

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11
<p>what motif? what active site?</p>

what motif? what active site?

disulfide crosslinked, antiparallel alpha and beta, active site on the disulfide (?)

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12
<p>what motif? what active site?</p>

what motif? what active site?

TIM barrel, parallel alpha beta, active site at the top

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13
<p>what motif? what active site?</p>

what motif? what active site?

Beta twist, parallel alpha and beta, active site at the top

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14
<p>right or left </p>

right or left

thumb points to the left, curves on bottom, it is left

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15

what motif binds to the minor groove?

saddle

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16

what motif binds to the major groove?

helix turn helix and zinc finger

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17
<p>secondary structure that fits into electron density</p>

secondary structure that fits into electron density

beta

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18
<p>secondary structure that fits into electron density</p>

secondary structure that fits into electron density

beta

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19

Crystal structure #’s

Resolution - better than 3A

R merge - less than 10% overall AND less than 50% for the highest resolution shell (# in parenthesis)

R free - less than 25% error

Ramanchadran plot - 0% error

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20

Entropy goes ____ when nonpolar groups are internally buried. So that makes -T∆S more ____
∆G more ____, so protein more likely to ______.

Entropy goes UP when nonpolar groups are internally buried. So that makes -T∆S more NEGATIVE
∆G more NEGATIVE, so protein more likely to FOLD.

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21

Entropy goes ____ when nonpolar groups are exposed to water. So that makes -T∆S more ____
∆G more ____, so protein more likely to ______.

Entropy goes DOWN when nonpolar groups are internally buried. So that makes -T∆S more POSTIVE
∆G more NEGATIVE, so protein more likely to UNFOLD.

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22

reduced resolution in higher temperature for crystallography

due to radiation damage, so freeze crystal

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23
<p>drug binding site? </p>

drug binding site?

blue

<p>blue</p>
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24
<p>where does conformational change happen? what motif? </p>

where does conformational change happen? what motif?

red, beta hairpin

<p>red, beta hairpin</p>
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25
<p>Where is transmembrane protein? where is N domain? where is adaptor domain? where is P domain?</p>

Where is transmembrane protein? where is N domain? where is adaptor domain? where is P domain?

Transmembrane domain - yellow

A domain - blue

P domain - magenta

N domain - brown

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26
<p>Where will digitalis bind? </p>

Where will digitalis bind?

Transmembrane domain (yellow)

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27
<p>Where is Asp active site?</p>

Where is Asp active site?

P domain

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28
<p>Where is phosphorylated?</p>

Where is phosphorylated?

P domain

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29
<p>Where will ATP domain be hydrolyzed </p>

Where will ATP domain be hydrolyzed

N domain

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30
<p>Which metal ion catalysis is this? </p>

Which metal ion catalysis is this?

If Mg connected to 2' OH then it is general acid base

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31
<p>Which metal ion catalysis is this? </p>

Which metal ion catalysis is this?

If Mg connected to the 2' O then it is Lewis acid

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32
<p>Which metal ion catalysis is this? </p>

Which metal ion catalysis is this?

If Mg connected to the phosphate oxygen, then it is electrophilic catalysis

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