DynDom - Protein Domain Motions

Sucrose Isomerase

(All numbering and residues are taken from first PDB file)

Run Details Domains Sequence Morph Domain Pairs Contact Graph

DynDom run details

Property	Value
Name	Sucrose Isomerase
Conformer 1 (PDB)	4h2c (A)
Conformer 2 (PDB)	2pwg (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	312	0.38	5 - 54 73 - 74 76 - 98 194 - 196 254 - 254 276 - 284 295 - 324 326 - 373 383 - 387 412 - 414 418 - 555
2	192	0.42	55 - 72 75 - 75 99 - 193 197 - 253 255 - 275
3	47	0.25	285 - 294 325 - 325 374 - 382 388 - 411 415 - 417

Sequence

`___________________________________________________54_______________71_________________________98_______________________` `4h2c(A) : *GAPWWKSAVFYQVYPRSFKDTNGDGIGDFKGLTEKLDYLKGLGIDAIWINPHYASPNTDNGYDISDYREVMKEYGTMEDFDRLMAELKKRGMRLMVDVVINHSSDQHEWFKSSRASKDN` `:` `2pwg(A) : PGAPWWKSAVFYQVYPRSFKDTNGDGIGDFKGLTEKLDYLKGLGIDAIWINPHYASPNTDNGYDISDYREVMKEYGTMEDFDRLMAELKKRGMRLMVDVVINHSSDQHEWFKSSRASKDN` `___________________________________________________54_______________71_________________________98_______________________` `_____________________________________________________________________193________________________________________________` `4h2c(A) : PYRDYYFWRDGKDGHEPNNYPSFFGGSAWEKDPVTGQYYLHYFGRQQPDLNWDTPKLREELYAMLRFWLDKGVSGMRFDTVATYSKTPGFPDLTPEQMKNFAEAYTQGPNLHRYLQEMHE` `:` `2pwg(A) : PYRDYYFWRDGKDGHEPNNYPSFFGGSAWEKDPVTGQYYLHYFGRQQPDLNWDTPKLREELYAMLRFWLDKGVSGMRFDTVATYSKTPGFPDLTPEQMKNFAEAYTQGPNLHRYLQEMHE` `_____________________________________________________________________193________________________________________________` `_________253___________________275______284_____292_____________________________324_____________________________________` `4h2c(A) : KVFDHYDAVTAGEIFGAPLNQVPLFIDSRRKELDMAFTFDLICYDRALDRWHTIPRTLADFRQTIDKVDAIAGEYGWNTFFLGNHDNPRAVSHFGDDRPQWREASAKALATVTLTQRGTP` `:` `2pwg(A) : KVFDHYDAVTAGEIFGAPLNQVPLFIDSRRKELDMAFTFDLIRYDRALDRWHTIPRTLADFRQTIDKVDAIAGEYGWNTFFLGNHDNPRAVSHFGDDRPQWREASAKALATVTLTQRGTP` `_________253___________________275______284_____292_____________________________324_____________________________________` `_________373_____381___387_____________________411___417________________________________________________________________` `4h2c(A) : FIFQGDELGMTNYPFKTLQDFDDIEVKGFFQDYVETGKATAEELLTNVALTSRDNARTPFQWDDSANAGFTTGKPWLKVNPNYTEINAAREIGDPKSVYSFYRNLISIRHETPALSTGSY` `:` `2pwg(A) : FIFQGDELGMTNYPFKTLQDFDDIEVKGFFQDYVETGKATAEELLTNVALTSRDNARTPFQWDDSANAGFTTGKPWLKVNPNYTEINAAREIGDPKSVYSFYRNLISIRHETPALSTGSY` `_________373_____381___387_____________________411___417________________________________________________________________` `____________________________________________________________________________` `4h2c(A) : RDIDPSNADVYAYTRSQDGETYLVVVNFKAEPRSFTLPDGMHIAETLIESSSPAAPAAGAASLELQPWQSGIYKVK` `:` `2pwg(A) : RDIDPSNADVYAYTRSQDGETYLVVVNFKAEPRSFTLPDGMHIAETLIESSSPAAPAAGAASLELQPWQSGIYKVK` `____________________________________________________________________________`

Morph

This morph was created using the MorphIt_Pro protein morphing technique.
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Domain Pairs

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( red )	2
Rotation Angle (deg)	9.8
Translation (A)	0.5
Closure (%)	94.5
Bending Residues ( green )	54 - 55 71 - 76 98 - 99 193 - 197 253 - 261 275 - 278
Bending Region Analysis

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( yellow )	3
Rotation Angle (deg)	6.4
Translation (A)	0.2
Closure (%)	99.9
Bending Residues ( green )	284 - 286 292 - 298 324 - 327 373 - 374 381 - 385 387 - 388 411 - 412 414 - 415 417 - 418
Bending Region Analysis

Dynamic Contact Graph

Conformer 1 Contact:
Residue 1 ———› Residue 2

Conformer 2 Contact:
Residue 2 ———› Residue 1

Movement classification: Hinge

Conformer 1 Contact:
Residue 1 ———› Residue 3

Conformer 2 Contact:
Residue 3 ———› Residue 1

Movement classification: Mixed

PyMOL Script

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