DynDom - Protein Domain Motions

Pyruvate Kinase, Isozymes M1/m2

(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	Pyruvate Kinase, Isozymes M1/m2
Conformer 1 (PDB)	3bjt (A)
Conformer 2 (PDB)	4fxf (B)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	401	0.62	28 - 118 211 - 214 218 - 529
2	95	1.23	119 - 210 215 - 217

Sequence

`______________________________________________________________________________________________________118_______________` `3bjt(A) : QTQQLHAAMADTFLEHMCRLDIDSPPITARNTGIICTIGPASRSVETLKEMIKSGMNVARLNFSHGTHEYHAETIKNVRTATESFASDPILYRPVAVALDTKGPEIRTGLIKGSGTAEVE` `:` `4fxf(B) : ************FLEHMCRLDIDSPPITARNTGIICTIGPASRSVETLKEMIKSGMNVARLNFSHGTHEYHAETIKNVRTATESFASDPILYRPVAVALDTKGPEIRTGLIKGSGTAEVE` `______________________________________________________________________________________________________118_______________` `__________________________________________________________________________210____217____________________________________` `3bjt(A) : LKKGATLKITLDNAYMEKCDENILWLDYKNICKVVEVGSKIYVDDGLISLQVKQKGADFLVTEVENGGSLGSKKGVNLPGAAVDLPAVSEKDIQDLKFGVEQDVDMVFASFIRKASDVHE` `:` `4fxf(B) : LKKGATLKITLDNAYMEKCDENILWLDYKNICKVVEVGSKIYVDDGLISLQVKQKGADFLVTEVENGGSLGSKKGVNLPGAAVDLPAVSEKDIQDLKFGVEQDVDMVFASFIRKASDVHE` `__________________________________________________________________________210____217____________________________________` `________________________________________________________________________________________________________________________` `3bjt(A) : VRKVLGEKGKNIKIISKIENHEGVRRFDEILEASDGIMVARGDLGIEIPAEKVFLAQKMMIGRCNRAGKPVICATQMLESMIKKPRPTRAEGSDVANAVLDGADCIMLSGETAKGDYPLE` `:` `4fxf(B) : VRKVLGEKGKNIKIISKIENHEGVRRFDEILEASDGIMVARGDLGIEIPAEKVFLAQKMMIGRCNRAGKPVICATQMLESMIKKPRPTRAEGSDVANAVLDGADCIMLSGETAKGDYPLE` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `3bjt(A) : AVRMQNLIAREAEAAIYHLQLFEELRRLAPITSDPTEATAVGAVEASFKCCSGAIIVLTKSGRSAHQVARYRPRAPIIAVTRNPQTARQAHLYRGIFPVLCKDPVQEAWAEDVDLRVNFA` `:` `4fxf(B) : AVRMQNLIAREAEAAIYHLQLFEELRRLAPITSDPTEATAVGAVEASFKCCSGAIIVLTKSGRSAHQVARYRPRAPIIAVTRNPQTARQAHLYRGIFPVLCKDPVQEAWAEDVDLRVNFA` `________________________________________________________________________________________________________________________` `______________________________________` `3bjt(A) : MNVGKARGFFKKGDVVIVLTG------fTNTMRVVPVP` `:` `4fxf(B) : MNVGKARGFFKKGDVVIVLTGWRPGSGFTNTMRVVPVP` `______________________________________`

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)	21.6
Translation (A)	0.4
Closure (%)	91.0
Bending Residues ( green )	118 - 119 210 - 215 217 - 223
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Hinge

PyMOL Script

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