Group:SMART:2010 Pingry SMART Team Models

From Proteopedia

Revision as of 14:26, 8 March 2010

Return to 2010 SMART Team Page: 2010 Pingry SMART Team

General design guidelines

Helix color (blue): [128,255,255]

Sheet color (red): [255,128,128]

Three residues (ARG, GLU, ASN; residue numbers differ by structure) that bind cofactor:

CPK the sidechain, color backbone (grey) [128,128,128]

AdhD K249G/H255R double mutant and Self-assembly into hydrogels

Design script:

Select all

Backbone off

Wireframe off

Spacefill off

Cartoon off

Backbone 300

Color white

Select (253-260) or (230-241) or (190-198) or (157-165) or (131-144) or (98-112) or (68-78) or (40-53)

Color [128,255,255]

Select (118-122) or (149-153) or (174-177) or (201-205) or (244-249) or (22-25) or (57-61) or (86-91)

Color [255,128,128]

Select 249 and (sidechain or alpha)

Wireframe 250

Select 249 and sidechain

Color cpk

Select 249 and alpha

Color [0,0,255]

Select 255 and (sidechain or alpha)

Wireframe 250

Select 255 and sidechain

Color cpk

Select 255 and alpha

Color [0,0,255]

PDB ID: 1a80, 2,5-diketo-d-gluconic acid reductase with NADPH (wild-type)

PDB ID: 1m9h, Mutant 2,5-diketo-d-gluconic acid reductase with NADH (mutant)

PDB ID: 1mi3, Xylose reductase with NAD+

Select all

Cartoon off

Spacefill off

Backbone 300

Color white

Select hetero and not water

Wireframe 250

Color cpk

Select 27-41 or 54-68 or 89-104 or 146-160 or 172-183 or 200-210 or 255-266 or 277-286

Color [128,255,255]

Select 20-22 or 45-47 or 77-82 or 108-113 or 163-169 or 189-193 or 213-217 or 270-271

Color [255,128,128]

Select 274-280

Color [255,255,0]

Select 225-229

Color [255,128,0]

select (227 or 276 or 280) and (sidechain or alpha)

wireframe 250

select (227 or 276 or 280) and (sidechain)

color cpk

select (227 or 276 or 280) and (alpha)

color [128,128,128]

select (274 or 275) and (sidechain or alpha)

wireframe 250

select (274 or 275) and (sidechain)

color cpk

PDB ID: 1lwi, Rat liver 3-alpha-hydroxysteroid dihydrodiol dehydrogenase with NADP+ cofactor

PDB ID: 1afs, Rat liver 3-alpha-hydroxysteroid dihydrodiol dehydrogenase with cofactor and testosterone