DynDom - Protein Domain Motions

Probable Trna Pseudouridine Synthase D

(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	Probable Trna Pseudouridine Synthase D
Conformer 1 (PDB)	1z2z (B)
Conformer 2 (PDB)	1z2z (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	318	0.99	4 - 167 172 - 174 265 - 270 272 - 272 274 - 364 367 - 372 384 - 434
2	106	0.82	168 - 171 175 - 264 271 - 271 273 - 273 365 - 366 373 - 383

Sequence

`________________________________________________________________________________________________________________________` `1z2z(B) : EVPEIEKQIGINLYSTDTTGLGGQLRQEIEDFIVKEITNREEGEEGKYLIVELTKRDWDTHHLTRTLSRILQVSQKRISVAGTKDKRALTTQKISIFDTDASEIEKIHLKDIELKVLGRS` `:` `1z2z(A) : EVPEIEKQIGINLYSTDTTGLGGQLRQEIEDFIVKEITNREEGEEGKYLIVELTKRDWDTHHLTRTLSRILQVSQKRISVAGTKDKRALTTQKISIFDTDASEIEKIHLKDIELKVLGRS` `________________________________________________________________________________________________________________________` `___________________________________________167_171______________________________________________________________________` `1z2z(B) : RKSVELGDLWGNDFRITVRNIENSPEETEALLKKTTDEILAQGGVPNFFGIQRFGSVRPVTHLVGKAIVEGNFEKAALLYIAEPFPEEPEETKNARQFVKDTLDFKEGLKTYPLRLGHER` `:` `1z2z(A) : RKSVELGDLWGNDFRITVRNIENSPEETEALLKKTTDEILAQGGVPNFFGIQRFGSVRPVTHLVGKAIVEGNFEKAALLYIAEPFPEEPEETKNARQFVKDTLDFKEGLKTYPLRLGHER` `___________________________________________167_171______________________________________________________________________` `________________262____270__________________________________________________________________________________________364_` `1z2z(B) : AnHLIANPEDYSGSFRVLPQNLYRfVHGYQSYIYNIILCRRIEAGIPLNRAVEGDIVCFRNEVGLPDSSKTEKVTSETVNAnRLLKLGRAFITAPLPGYNTEFASGIPGEIENGVLKELG` `:` `1z2z(A) : AnHLIANPEDYSGSFRVLPQNLYRfVHGYQSYIYNIILCRRIEAGIPLNRAVEGDIVCFRNEVGLPDSSKTEKVTSETVNAnRLLKLGRAFITAPLPGYNTEFASGIPGEIENGVLKELG` `________________262____270__________________________________________________________________________________________364_` `____372_______383___________________________________________________` `1z2z(B) : VSLEGFNIEKFPEsSKGTRREVLLEVKPKFEAGEDELNPGKSKAVLEFlPKGSYATTVLREYkVNPLQ` `:` `1z2z(A) : VSLEGFNIEKFPEsSKGTRREVLLEVKPKFEAGEDELNPGKSKAVLEFlPKGSYATTVLREYkVNPLQ` `____372_______383___________________________________________________`

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)	12.8
Translation (A)	0.0
Closure (%)	35.1
Bending Residues ( green )	167 - 168 171 - 172 174 - 179 262 - 265 270 - 274 364 - 367 372 - 373 383 - 384
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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