DynDom - Protein Domain Motions

Phosphoglycerate Kinase, Testis Specific

(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	Phosphoglycerate Kinase, Testis Specific
Conformer 1 (PDB)	2p9q (A)
Conformer 2 (PDB)	2p9t (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	44	0.93	163 - 178 180 - 180 187 - 201 392 - 395 407 - 414
2	164	0.55	6 - 162 179 - 179 181 - 186
3	185	0.85	202 - 391 399 - 405

Sequence

`________________________________________________________________________________________________________________________` `2p9q(A) : ALSAKLTLDKVDLKGKRVIMRVDFNVPMKNNQITNNQRIKAAIPSIKHCLDNGAKSVVLMSHLGRPDGIPMPDKYSLEPVADELKSLLNKDVIFLKDCVGPEVEQACANPDNGSIILLEN` `:` `2p9t(A) : ***AKLTLDKVDLKGKRVIMRVDFNVPMKNNQITNNQRIKAAIPSIKHCLDNGAKSVVLMSHLGRPDGIPMPDKYSLEPVADELKSLLNKDVIFLKDCVGPEVEQACANPDNGSIILLEN` `________________________________________________________________________________________________________________________` `_______________________________________162_____________178_____186____________201_______________________________________` `2p9q(A) : LRFHVEEEGKGKDSSGKKISADPAKVEAFRASLSKLGDVYVNDAFGTAHRAHSSMVGVNLPQKASGFLMKKELDYFSKALEKPERPFLAILGGAKVKDKIQLIKNMLDKVNFMIIGGGMA` `:` `2p9t(A) : LRFHVEEEGKGKDSSGKKISADPAKVEAFRASLSKLGDVYVNDAFGTAHRAHSSMVGVNLPQKASGFLMKKELDYFSKALEKPERPFLAILGGAKVKDKIQLIKNMLDKVNFMIIGGGMA` `_______________________________________162_____________178_____186____________201_______________________________________` `________________________________________________________________________________________________________________________` `2p9q(A) : YTFLKELKNMQIGASLFDEEGATIVKEIMEKAEKNGVKIVFPVDFVTGDKFDENAKVGQATIESGIPSGWMGLDCGPESIKINAQIVAQAKLIVWNGPIGVFEWDAFAKGTKALMDEVVK` `:` `2p9t(A) : YTFLKELKNMQIGASLFDEEGATIVKEIMEKAEKNGVKIVFPVDFVTGDKFDENAKVGQATIESGIPSGWMGLDCGPESIKINAQIVAQAKLIVWNGPIGVFEWDAFAKGTKALMDEVVK` `________________________________________________________________________________________________________________________` `____________________________391_395_______405___________` `2p9q(A) : ATSNGCVTIIGG------------eDKVSHVSTGGGASLELLEGKILPGVEALSNM` `:` `2p9t(A) : ATSNGCVTIIGGGDTATCCAKWGTEDKVSHVSTGGGASLELLEGKILPGVEALSNM` `____________________________391_395_______405___________`

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)	9.0
Translation (A)	-0.3
Closure (%)	92.6
Bending Residues ( green )	162 - 163 178 - 181 186 - 187
Bending Region Analysis

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( yellow )	3
Rotation Angle (deg)	10.4
Translation (A)	0.5
Closure (%)	53.2
Bending Residues ( green )	201 - 202 391 - 392 395 - 399 405 - 407
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: Hinge

PyMOL Script

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