DynDom - Protein Domain Motions

Ubiquitin-Like 2 Activating Enzyme E1b

(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	Ubiquitin-Like 2 Activating Enzyme E1b
Conformer 1 (PDB)	1y8r (B)
Conformer 2 (PDB)	1y8q (B)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	230	0.69	8 - 166 383 - 445 520 - 527
2	181	1.05	167 - 382
3	95	0.61	446 - 519 528 - 548

Sequence

`________________________________________________________________________________________________________________________` `1y8r(B) : SRGLPRELAEAVAGGRVLVVGAGGIGCELLKNLVLTGFSHIDLIDLDTIDVSNLNRQFLFQKKHVGRSKAQVAKESVLQFYPKANIVAYHDSIMNPDYNVEFFRQFILVMNALDNRAARN` `:` `1y8q(B) : **GLPRELAEAVAGGRVLVVGAGGIGCELLKNLVLTGFSHIDLIDLDTIDVSNLNRQFLFQKKHVGRSKAQVAKESVLQFYPKANIVAYHDSIMNPDYNVEFFRQFILVMNALDNRAARN` `________________________________________________________________________________________________________________________` `_________________________________159____________________________________________________________________________________` `1y8r(B) : HVNRMCLAADVPLIESGTAGYLGQVTTIKKGVTECYECHPKPTQRTFPGATIRNTPSEPIHCIVWAKYLFNQLFGEEDADQEVSPDRADPEAAWEtKEWAKSTGYDPVKLFTKLFKDDIR` `:` `1y8q(B) : HVNRMCLAADVPLIESGTAGYLGQVTTIKKGVTECYECHPKPTQRTFPGATIRNTPSEPIHCIVWAKYLFNQLFGEEDADQEVSPDRADPEAAWEtKEWAKSTGYDPVKLFTKLFKDDIR` `_________________________________159____________________________________________________________________________________` `_____________________________________________________________________________________________________382________________` `1y8r(B) : YLLTMDKLWRKRKPPVPLDWAEVQSQlGLKDQQVLDVKSYARLFSKSIETLRVHLAEKGDGAELIWDKDDPSAMDFVTSAANLRMHIFSMNMKSRFDIKSMAGNIIPAIATTNAVIAGLI` `:` `1y8q(B) : YLLTMDKLWRKRKPPVPLDWAEVQSQlGLKDQQVLDVKSYARLFSKSIETLRVHLAEKGDGAELIWDKDDPSAMDFVTSAANLRMHIFSMNMKSRFDIKSMAGNIIPAIATTNAVIAGLI` `_____________________________________________________________________________________________________382________________` `_____________________________________438______________________________________________________________________________51` `1y8r(B) : VLEGLKILSGKIDQCRTIFLNKQPNPRKKLLVPCALDPPNPNCYVCASKPEVTVRLNVHKVTVLTLQDKIVKEKFAMVAPDVQIEDGKGTILISSEEGETEANNHKKLSEFGIRNGSRLQ` `:` `1y8q(B) : VLEGLKILSGKIDQCRTIFLNKQPNPRKKLLVPCALDPPNPNCYVCASKPEVTVRLNVHKVTVLTLQDKIVKEKFAMVAPDVQIEDGKGTILISSEEGETEANNHKKLSEFGIRNGSRLQ` `_____________________________________438______________________________________________________________________________51` `9_____527_______________________` `1y8r(B) : ADDFLQDYTLLINILHSEDLGKDVEFEVVGDA` `:` `1y8q(B) : ADDFLQDYTLLINILHSEDLGKDVEFEVVGDA` `9_____527_______________________`

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)	21.1
Translation (A)	0.5
Closure (%)	99.3
Bending Residues ( green )	159 - 167 382 - 383
Bending Region Analysis

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( yellow )	3
Rotation Angle (deg)	15.0
Translation (A)	0.7
Closure (%)	71.1
Bending Residues ( green )	438 - 446 519 - 520 527 - 528
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: Hinge

PyMOL Script

Download and extract PyMOL PML script file

Download