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)	1y8q (D)
Conformer 2 (PDB)	1y8r (E)
Window Length	9
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	219	0.32	9 - 161 379 - 444
2	170	0.57	176 - 378
3	86	0.45	445 - 530

Sequence

`________________________________________________________________________________________________________________________` `1y8q(D) : SRGLPRELAEAVAGGRVLVVGAGGIGCELLKNLVLTGFSHIDLIDLDTIDVSNLNRQFLFQKKHVGRSKAQVAKESVLQFYPKANIVAYHDSIMNPDYNVEFFRQFILVMNALDNRAARN` `:` `1y8r(E) : SRGLPRELAEAVAGGRVLVVGAGGIGCELLKNLVLTGFSHIDLIDLDTIDVSNLNRQFLFQKKHVGRSKAQVAKESVLQFYPKANIVAYHDSIMNPDYNVEFFRQFILVMNALDNRAARN` `________________________________________________________________________________________________________________________` `________________________________158_____________________________________________________________________________________` `1y8q(D) : HVNRMCLAADVPLIESGTAGYLGQVTTIKKGVTECYECHPKPTQRTFPGATIRNTPSEPIHCIVWAKYLFNQLFGEEDADQEVSPDRADPEAAWEiSTKEWAKSTGYDPVKLFTKLFKDD` `:` `1y8r(E) : HVNRMCLAADVPLIESGTAGYLGQVTTIKKGVTECYECHPKPTQRTFPGATIRNTPSEPIHCIVWAKYLFNQLFGEEDADQEVSPDRADPEAAWEiSTKEWAKSTGYDPVKLFTKLFKDD` `________________________________158_____________________________________________________________________________________` `___________________________________________________________________________________________________378__________________` `1y8q(D) : IRYLLTMDKLWRKRKPPVPLDWAEVQSQlGLKDQQVLDVKSYARLFSKSIETLRVHLAEKGDGAELIWDKDDPSAMDFVTSAANLRMHIFSMNMKSRFDIKSMAGNIIPAIATTNAVIAG` `:` `1y8r(E) : IRYLLTMDKLWRKRKPPVPLDWAEVQSQlGLKDQQVLDVKSYARLFSKSIETLRVHLAEKGDGAELIWDKDDPSAMDFVTSAANLRMHIFSMNMKSRFDIKSMAGNIIPAIATTNAVIAG` `___________________________________________________________________________________________________378__________________` `_______________________________________438______________________________________________________________________________` `1y8q(D) : LIVLEGLKILSGKIDQCRTIFLNKQPNPRKKLLVPCALDPPNPNCYVCASKPEVTVRLNVHKVTVLTLQDKIVKEKFAMVAPDVQIEDGKGTILISSEEGETEANNHKKLSEFGIRNGSR` `:` `1y8r(E) : LIVLEGLKILSGKIDQCRTIFLNKQPNPRKKLLVPCALDPPNPNCYVCASKPEVTVRLNVHKVTVLTLQDKIVKEKFAMVAPDVQIEDGKGTILISSEEGETEANNHKKLSEFGIRNGSR` `_______________________________________438______________________________________________________________________________` `__________________________________` `1y8q(D) : LQADDFLQDYTLLINILHSEDLGKDVEFEVVGDA` `:` `1y8r(E) : LQADDFLQDYTLLINILHSEDLGKDVEFEVVGDA` `__________________________________`

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)	4.5
Translation (A)	-0.3
Closure (%)	0.9
Bending Residues ( green )	158 - 176 378 - 379
Bending Region Analysis

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( yellow )	3
Rotation Angle (deg)	4.3
Translation (A)	-0.1
Closure (%)	52.9
Bending Residues ( green )	438 - 446
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Shear

Conformer 1 Contact:
Residue 1 ———› Residue 3

Conformer 2 Contact:
Residue 3 ———› Residue 1

Movement classification: Mixed

PyMOL Script

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