DynDom - Protein Domain Motions

Protein Transport Protein Sec23

(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	Protein Transport Protein Sec23
Conformer 1 (PDB)	1m2v (A)
Conformer 2 (PDB)	1m2o (C)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	608	0.84	4 - 628 657 - 662 704 - 708 722 - 723 727 - 763
2	85	0.91	629 - 656 663 - 703 709 - 721 724 - 726

Sequence

`________________________________________________________________________________________________________________________` `1m2v(A) : DFETNEDINGVRFTWNVFPSTRSDANSNVVPVGCLYTPLKEYDELNVAPYNPVVCSGPHCKSILNPYCVIDPRNSSWSCPICNSRNHLPPQYTNLSQENMPLELQSTTIEYITNKPVTVP` `:` `1m2o(C) : DFETNEDINGVRFTWNVFPSTRSDANSNVVPVGCLYTPLKEYDELNVAPYNPVVCSGPHCKSILNPYCVIDPRNSSWSCPICNSRNHLPPQYTN---eNMPLELQSTTIEYITNKPVTVP` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1m2v(A) : PIFFFVVDLTSETENLDSLKESIITSLSLLPPNALIGLITYGNVVQLHDLSSETIDRCNVFRGDREYQLEALTEMLT-------pFSLNRFFLPLEQVEFKLNQLLENLSPDQWSVPAGH` `:` `1m2o(C) : PIFFFVVDLTSETENLDSLKESIITSLSLLPPNALIGLITYGNVVQLHDLSSETIDRCNVFRGDREYQLEALTEMLTGQKPTvTPFSLNRFFLPLEQVEFKLNQLLENLSPDQWSVPAGH` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1m2v(A) : RPLRATGSALNIASLLLQGCYKNIPARIILFASGPGTVAPGLIVNSELKDPLRSHHDIDSDHAQHYKKACKFYNQIAQRVAANGHTVDIFAGCYDQIGMSEMKQLTDSTGGVLLLTDAFS` `:` `1m2o(C) : RPLRATGSALNIASLLLQGCYKNIPARIILFASGPGTVAPGLIVNSELKDPLRSHHDIDSDHAQHYKKACKFYNQIAQRVAANGHTVDIFAGCYDQIGMSEMKQLTDSTGGVLLLTDAFS` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1m2v(A) : TAIFKQSYLRLFAKDEEGYLKMAFNGNMAVKTSKDLKVQGLIGHASAVKKTDANNISESEIGIGATSTWKMASLSPYHSYAIFFEIANTrPHLAYTQFITTYQHSSGTNRIRVTTVANQL` `:` `1m2o(C) : TAIFKQSYLRLFAKDEEGYLKMAFNGNMAVKTSKDLKVQGLIGHASAVKKTDANNISESEIGIGATSTWKMASLSPYHSYAIFFEIANT--hLAYTQFITTYQHSSGTNRIRVTTVANQL` `________________________________________________________________________________________________________________________` `__________________________________________________________________________________________________________________628___` `1m2v(A) : LPFGTPAIAASFDQEAAAVLMARIAVHKAETd----VIRWLDRTLIKLCQKYADYNKDDPQSFRLAPNFSLYPQFTYYLRRSQFLSVFNNSPDETAFYRHIFTREDTTNSLIMIQPTLTS` `:` `1m2o(C) : LPFGTPAIAASFDQEAAAVLMARIAVHKAETDDGADVIRWLDRTLIKLCQKYADYNKDDPQSFRLAPNFSLYPQFTYYLRRSQFLSVFNNSPDETAFYRHIFTREDTTNSLIMIQPTLTS` `__________________________________________________________________________________________________________________628___` `______________________656___662______________________________________703__708__________721__726_________________________` `1m2v(A) : FSMEDDPQPVLLDSISVKPNTILLLDTFFFILIYHGEQIAQWRKAGYQDDPQYADFKALLEEPKLEAAELLVDRFPLPRFIDTEAGGSQARFLLSKL----------vSLQNFMTHLQQV` `:` `1m2o(C) : FSMEDDPQPVLLDSISVKPNTILLLDTFFFILIYHGEQIAQWRKAGYQDDPQYADFKALLEEPKLEAAELLVDRFPLPRFIDTEAGGSQARFLLSKLNPStIVLTDDVSLQNFMTHLQQV` `______________________656___662______________________________________703__708__________721__726_________________________` `______` `1m2v(A) : AVSGQA` `:` `1m2o(C) : AVS***` `______`

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)	7.1
Translation (A)	0.8
Closure (%)	79.6
Bending Residues ( green )	628 - 629 656 - 657 662 - 663 703 - 704 708 - 709 721 - 724 726 - 727
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Shear

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