DynDom - Protein Domain Motions

Succinyl-Coa:3-Ketoacid-Coenzyme A Transferase 1, Mitochondrial

(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	Succinyl-Coa:3-Ketoacid-Coenzyme A Transferase 1, Mitochondrial
Conformer 1 (PDB)	3k6m (C)
Conformer 2 (PDB)	3k6m (B)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	325	0.76	3 - 244 278 - 279 288 - 292 300 - 356 374 - 375 377 - 377 381 - 396
2	132	1.0	245 - 277 280 - 287 293 - 299 357 - 373 376 - 376 378 - 378 397 - 478

Sequence

`________________________________________________________________________________________________________________________` `3k6m(C) : TKFYTDAVEAVKDIPNGATVLVGGFGLCGIPENLIGALLKTGVKELTAVSNNAGVDNFGLGLLLQSKQIKRMISSYVGENAEFERQYLAGELEVELTPQGTLAERIRAGGAGVPAFYTST` `:` `3k6m(B) : TKFYTDAVEAVKDIPNGATVLVGGFGLCGIPENLIGALLKTGVKELTAVSNNAGVDNFGLGLLLQSKQIKRMISSYVGENAEFERQYLAGELEVELTPQGTLAERIRAGGAGVPAFYTST` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `3k6m(C) : GYGTLVQEGGSPIKYNKDGSIAIASKPREVREFNGQHFILEEAIRGDFALVKAWKADQAGNVTFRKSARNFNLPMCKAAETTVVEVEEIVDIGSFAPEDIHIPKIYVHRLVKGEKYEKRI` `:` `3k6m(B) : GYGTLVQEGGSPIKYNKDGSIAIASKPREVREFNGQHFILEEAIRGDFALVKAWKADQAGNVTFRKSARNFNLPMCKAAETTVVEVEEIVDIGSFAPEDIHIPKIYVHRLVKGEKYEKRI` `________________________________________________________________________________________________________________________` `_244________________277__282_______________________________________________________________________356______________373_` `3k6m(C) : ERLSVRnVRERIIKRAALEFEDGMYANLGIGIPLLASNFISPNMTVHLQSENGILGLGPYPLQNEVDADLINAGKETVTVLPGASYFSSDESFAMIRGGHVNLTMLGAMQVSKYGDLANW` `:` `3k6m(B) : ERLSVRnVRERIIKRAALEFEDGMYANLGIGIPLLASNFI---mTVHLQSENGILGLGPYPLQNEVDADLINAGKETVTVLPGASYFSSDESFAMIRGGHVNLTMLGAMQVSKYGDLANW` `_244________________277__282_______________________________________________________________________356______________373_` `_________________394______________________________________________________________________________________` `3k6m(C) : MIPGKLVKGMGGAMDLVSSAKTKVVVTMEHSAKGNAHKIMEKCTLPLTGKQCVNRIITEKAVFDVDRKKGLTLIELWEGLTVDDIKKSTGCDFAVSPKLIPMQQVT` `:` `3k6m(B) : MIPG--vKGMGGAMDLVSSAKTKVVVTMEHSAKGNAHKIMEKCTLPLTGKQCVNRIITEKAVFDVDRKKGLTLIELWEGLTVDDIKKSTGCDFAVSPKLIPMQQVT` `_________________394______________________________________________________________________________________`

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)	14.1
Translation (A)	0.9
Closure (%)	94.7
Bending Residues ( green )	244 - 245 277 - 280 282 - 301 356 - 357 373 - 384 394 - 397
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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