DynDom - Protein Domain Motions

Putative Malic Enzyme ((S)-Malate:nad+ Oxidoreductase (Decarboxylating))

(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	Putative Malic Enzyme ((S)-Malate:nad+ Oxidoreductase (Decarboxylating))
Conformer 1 (PDB)	2a9f (A)
Conformer 2 (PDB)	2a9f (B)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	184	1.56	95 - 95 160 - 162 167 - 323 341 - 363 378 - 378 381 - 382
2	180	0.7	11 - 94 96 - 159 163 - 166 324 - 340 370 - 377 379 - 380 383 - 383

Sequence

`__________________________________________________________________________________________94____________________________` `2a9f(A) : LKNQLGQLALEQAKTFGGKLEVQPKVDIKTKHDLSIAYTPGVASVSSAIAKDKTLAYDLTTKKNTVAVISDGTAVLGLGDIGPEAAMPVMEGKAALFKAFAGVDAIPIVLDTKDTEEIIS` `:` `2a9f(B) : LKNQLGQLALEQAKTFGGKLEVQPKVDIKTKHDLSIAYTPGVASVSSAIAKDKTLAYDLTTKKNTVAVISDGTAVLGLGDIGPEAAMPVMEGKAALFKAFAGVDAIPIVLDTKDTEEIIS` `__________________________________________________________________________________________94____________________________` `__________________________________159____166____________________________________________________________________________` `2a9f(A) : IVKALAPTFGGINLEDISAPRCFEIEQRLIKECHIPVFHDDQHGTAIVVLAAIFNSLKLLKKSLDEVSIVVNGGGSAGLSITRKLLAAGATKVTVVDKFGIINEQEAAQLAPdIAKVTNR` `:` `2a9f(B) : IVKALAPTFGGINLEDISAPRCFEIEQRLIKECHIPVFHDDQHGTAIVVLAAIFNSLKLLKKSLDEVSIVVNGGGSAGLSITRKLLAAGATKVTVVDKFGIINEQEAAQLAPdIAKVTNR` `__________________________________159____166____________________________________________________________________________` `___________________________________________________________________________323______________340____________________363__` `2a9f(A) : EFKSGTLEDALEGADIFIGVSAPGVLKAEWISKMAARPVIFAMANPIPEIYPDEALEAGAYIVGTGRSDFPNQINNVLAFPGIFRGALDARAKTITVEMQIAAAKGIASLVPDDALSTTN` `:` `2a9f(B) : EFKSGTLEDALEGADIFIGVSAPGVLKAEWISKMAARPVIFAMANPIPEIYPDEALEAGAYIVGTGRSDFPNQINNVLAFPGIFRGALDARAKTITVEMQIAAAKGIASLVPDDALSTTN` `___________________________________________________________________________323______________340____________________363__` `_________377___________` `2a9f(A) : IIPDAFKEGVAEIVAKSVRSVVL` `:` `2a9f(B) : IIPDAFKEGVAEIVAKSVRS***` `_________377___________`

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)	9.7
Translation (A)	0.2
Closure (%)	1.9
Bending Residues ( green )	94 - 96 159 - 160 162 - 163 166 - 167 323 - 324 340 - 341 363 - 370 377 - 383
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Shear

PyMOL Script

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