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)	2ahw (B)
Conformer 2 (PDB)	2ahu (C)
Window Length	7
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	330	0.28	7 - 202 206 - 272 303 - 305 312 - 319 323 - 329 354 - 371 378 - 380 389 - 410 448 - 457 526 - 526
2	166	0.37	203 - 205 273 - 302 306 - 311 320 - 322 330 - 353 372 - 377 381 - 388 411 - 447 458 - 525

Sequence

`________________________________________________________________________________________________________________________` `2ahw(B) : VKPPRINGRVPVLSAQEAVNYIPDEATLCVLGAGGGILEATTLITALADKYKQTQTPRNLSIISPTGLGDRADRGISPLAQEGLVKWALCGHWGQSPRISDLAEQNKIIAYNYPQGVLTQ` `:` `2ahu(C) : VKPPRINGRVPVLSAQEAVNYIPDEATLCVLGAGGGILEATTLITALADKYKQTQTPRNLSIISPTGLGDRADRGISPLAQEGLVKWALCGHWGQSPRISDLAEQNKIIAYNYPQGVLTQ` `________________________________________________________________________________________________________________________` `____________________________________________________________________________202_________________________________________` `2ahw(B) : TLRAAAAHQPGIISDIGIGTFVDPRQQGGKLNEVTKEDLIKLVEFDNKEYLYYKAIAPDIAFIRATTCDSEGYATFEDEVMYLDALVIAQAVHNNGGIVMMQVQKMVKKATLHPKSVRIP` `:` `2ahu(C) : TLRAAAAHQPGIISDIGIGTFVDPRQQGGKLNEVTKEDLIKLVEFDNKEYLYYKAIAPDIAFIRATTCDSEGYATFEDEV-yLDALVIAQAVHNNGGIV--qVQK-vKKATLHPKSVRIP` `____________________________________________________________________________202_________________________________________` `__________________________272_____________________302______311________322____329________________353_______________371___` `2ahw(B) : GYLVDIVVVDPDQSQLYGGAPVNRFISGDFTLD-pLNQRKLVARRALFEMRKGAVGNVGVGIADGIGLVAREEGCADDFILTVETGPIGGIT--aNVNTRAILDMTSQFDFYHGGGLDVC` `:` `2ahu(C) : GYLVDIVVVDPDQSQLYGGAPVNRFISGDFTLDlPLNQRKLVARRALFE-rKGAVGNVGVGIADGIGLVAREEGCADDFILTVETGPIGGITSgANVNTRAILD-tSQFDFYHGGGLDVC` `__________________________272_____________________302______311________322____329________________353_______________371___` `377________388___________________410__________________________________447_______457_____________________________________` `2ahw(B) : YLSFAEVDQHGNVGVHKFNGKIMGTGGFIDISATSKKIIFCGTLTAGSLKTEIADGKLNIVQEGRVKKFIRELPEITFSGKIALERGLDVRYITERAVFTLKEDGLHLIEIAPGVDLQKD` `:` `2ahu(C) : YLSFAEVDQHGNVGVHKFNGKI-gTGGFIDISATSKKIIFCGTLTAGSLKTEIADGKLNIVQEGRVKKFIRELPEITFSGKIALERGLDVRYITERAVFTLKEDGLHLIEIAPGVDLQKD` `377________388___________________410__________________________________447_______457_____________________________________` `____________________________525____` `2ahw(B) : ILDKMDFTPVISPELKLMDERLFIDAAMGFVLPEA` `:` `2ahu(C) : ILDK-dFTPVISPELKL-dERLFIDAA-gFVLPEA` `____________________________525____`

Morph

This morph was created using the MorphIt_Pro protein morphing technique.
For more advanced options, right click on the model.

play backwards

pause

play forwards

Domain Pairs

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( red )	2
Rotation Angle (deg)	2.3
Translation (A)	-0.1
Closure (%)	93.5
Bending Residues ( green )	202 - 206 272 - 273 302 - 303 305 - 306 311 - 320 322 - 323 329 - 335 353 - 354 371 - 372 377 - 378 380 - 381 388 - 395 410 - 411 447 - 448 457 - 458 525 - 526
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

Download and extract PyMOL PML script file

Download