DynDom - Protein Domain Motions

Putative Enzyme Ydif

(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 Enzyme Ydif
Conformer 1 (PDB)	2ahu (C)
Conformer 2 (PDB)	2ahw (D)
Window Length	9
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	330	0.32	8 - 275 328 - 372 386 - 386 389 - 409 453 - 460
2	140	0.46	276 - 327 373 - 385 387 - 388 410 - 452 461 - 525

Sequence

`________________________________________________________________________________________________________________________` `2ahu(C) : VKPPRINGRVPVLSAQEAVNYIPDEATLCVLGAGGGILEATTLITALADKYKQTQTPRNLSIISPTGLGDRADRGISPLAQEGLVKWALCGHWGQSPRISDLAEQNKIIAYNYPQGVLTQ` `:` `2ahw(D) : VKPPRINGRVPVLSAQEAVNYIPDEATLCVLGAGGGILEATTLITALADKYKQTQTPRNLSIISPTGLGDRADRGISPLAQEGLVKWALCGHWGQSPRISDLAEQNKIIAYNYPQGVLTQ` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `2ahu(C) : TLRAAAAHQPGIISDIGIGTFVDPRQQGGKLNEVTKEDLIKLVEFDNKEYLYYKAIAPDIAFIRATTCDSEGYATFEDEV-yLDALVIAQAVHNNGGIV--qVQK-vKKATLHPKSVRIP` `:` `2ahw(D) : TLRAAAAHQPGIISDIGIGTFVDPRQQGGKLNEVTKEDLIKLVEFDNKEYLYYKAIAPDIAFIRATTCDSEGYATFEDEVMYLDALVIAQAVHNNGGIVMMQVQKMVKKATLHPKSVRIP` `________________________________________________________________________________________________________________________` `___________________________273_____________________________________________327_____________________________________372__` `2ahu(C) : GYLVDIVVVDPDQSQLYGGAPVNRFISGDFTLDlPLNQRKLVARRALFE-rKGAVGNVGVGIADGIGLVAREEGCADDFILTVETGPIGGITSgANVNTRAILD-tSQFDFYHGGGLDVC` `:` `2ahw(D) : GYLVDIVVVDPDQSQLYGGAPVNRFISGDFTLD-pLNQRKLVARRALFEMRKGAVGNVGVGIADGIGLVAREEGCADDFILTVETGPIGGIT--aNVNTRAILDMTSQFDFYHGGGLDVC` `___________________________273_____________________________________________327_____________________________________372__` `________385_____________________409________________________________________452_____460__________________________________` `2ahu(C) : YLSFAEVDQHGNVGVHKFNGKI-gTGGFIDISATSKKIIFCGTLTAGSLKTEIADGKLNIVQEGRVKKFIRELPEITFSGKIALERGLDVRYITERAVFTLKEDGLHLIEIAPGVDLQKD` `:` `2ahw(D) : YLSFAEVDQHGNVGVHKFNGKIMGTGGFIDISATSKKIIFCGTLT-----------kLNIVQEG----fI-eLPEITFSGKIALERGLDVRYITERAVFTLKED-lHLIEIAPGVDL---` `________385_____________________409________________________________________452_____460__________________________________` `__________________________________` `2ahu(C) :` `ILDKdFTPVISPELKL-dERLFIDAA-gFVLPEA` `:` `2ahw(D) :` `----dFTPVISPELKLMDERLFIDAAMGFVLPEA` `__________________________________`

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)	3.2
Translation (A)	0.0
Closure (%)	93.4
Bending Residues ( green )	273 - 276 327 - 328 372 - 373 385 - 396 409 - 410 452 - 453 460 - 461
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Mixed

PyMOL Script

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