DynDom - Protein Domain Motions

Succinyl-Coa:3-Ketoacid-Coenzyme A Transferase

(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
Conformer 1 (PDB)	1o9l (D)
Conformer 2 (PDB)	1o9l (B)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	323	0.24	42 - 120 131 - 168 183 - 301 314 - 396 399 - 437 472 - 472
2	24	0.6	121 - 130 169 - 182
3	69	0.3	302 - 313 397 - 398 438 - 471 473 - 517

Sequence

`__________________________________________________________________________116___________130_____________________________` `1o9l(D) : TKFYTDAVEAVKDIPNGATVLVGGFGLCGIPENLIGALLKTGVKELTAVSNNAGVDNFGLGLLLQSKQIKRMISSYVGENAEFERQYLAGELEVELTPQGTLAERIRAGGAGVPAFYTST` `:` `1o9l(B) : TKFYTDAVEAVKDIPNGATVLVGGFGLCGIPENLIGALLKTGVKELTAVSNNAGVDNFGLGLLLQSKQIKRMISSYVGENAEFERQYLAGELEVELTPQGTLAERIRAGGAGVPAFYTST` `__________________________________________________________________________116___________130_____________________________` `___165______________182________________________________________________________________________________________________2` `1o9l(D) : GYGTLVQEGGSPIKYNKDGSIAIASKPREVREFNGQHFILEEAIRGDFALVKAWKADQAGNVTFRKSARNFNLPMCKAAETTVVEVEEIVDIGSFAPEDIHIPKIYVHRLVKGEKYEKRI` `:` `1o9l(B) : GYGTLVQEGGSPIKYNKDGSIAIASKPREVREFNGQHFILEEAIRGDFALVKAWKADQAGNVTFRKSARNFNLPMCKAAETTVVEVEEIVDIGSFAPEDIHIPKIYVHRLVKGEKYEKRI` `___165______________182________________________________________________________________________________________________2` `81______________311_______________________________________________________________________________393___________________` `1o9l(D) : ERL----nVRERIIKRAALEFEDGMYANLGIGIPLLASNFISPNMTVHLQSENGILGLGPYPLQNEVDADLINAGKETVTVLPGASYFSSDESFAMIRGGHVNLTMLGAMQVSKYGDLAN` `:` `1o9l(B) : ERLSVRKnVRERIIKRAALEFEDGMYANLGIGIPLLASNFISPNMTVHLQSENGILGLGPYPLQNEVDADLINAGKETVTVLPGASYFSSDESFAMIRGGHVNLTMLG------------` `81______________311_______________________________________________________________________________393___________________` `______________________437_______________________________471_________________________________________________` `1o9l(D) :` `WMIPGKLVKGMGGAMDLVSSAKTKVVVTMEHSAKGNAHKIMEKCTLPLTGKQCVNRIITEKAVFDVDRKKGLTLIELWEGLTVDDIKKSTGCDFAVSPKLIPMQQVTT` `:` `1o9l(B) :` `-------vKGMGGAMDLVSSAKTKVVVT------------------------cVNRIITEKAVFDVDRKKGLTLIELWEGLTVDDIKKSTGCDFAVSPKLIPMQQVTT` `______________________437_______________________________471_________________________________________________`

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)	8.7
Translation (A)	0.1
Closure (%)	86.6
Bending Residues ( green )	116 - 121 130 - 133 165 - 169 182 - 185
Bending Region Analysis

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( yellow )	3
Rotation Angle (deg)	4.1
Translation (A)	0.3
Closure (%)	83.8
Bending Residues ( green )	281 - 302 311 - 314 393 - 421 437 - 438 471 - 473
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: Shear

PyMOL Script

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