DynDom - Protein Domain Motions

Seryl-Trna Synthetase

(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	Seryl-Trna Synthetase
Conformer 1 (PDB)	2cim (A)
Conformer 2 (PDB)	2cim (B)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	322	0.58	160 - 500
2	148	0.71	3 - 159

Sequence

`________________________________________________________________________________________________________________________` `2cim(A) : ***MKLQFNLKAYFKTSADPTPAKDAIAALFEEANSTLLTRGAPEGQGAKVTEWKLGEDRIELTLQSGRYVRVHDAIFRLRKQLAEALGKKYKIGIRGIEVESFIIKVPADHELRMLKVP` `:` `2cim(B) : GSHMKLQFNLKAYFKTSADPTPAKDAIAALFEEANSTLLTRGAPEGQGAKVTEWK---dRIELTLQSGRYVRVHDAIFRLRKQLAEALGKKY------iEVESFIIKVPADHELRMLKVP` `________________________________________________________________________________________________________________________` `_______________________________________159______________________________________________________________________________` `2cim(A) : YIKSMENIEGGIQLELEVGEAEMKNRVPDRILTLLEEKIEAAQYGAKAEHWNLLWQREPMEHPFKEDPTQAMMKEGWLKRGSSRGQWIHGPQSARIFRTFEKIVLEELLEPLGYREMIFP` `:` `2cim(B) : YIKSMENIEGGIQLELEVGEAEMKNRVPDRILTLLEEKIEAAQY----eHWNLLWQREPMEHPFKEDPTQAMMKEGWLKRGSSRGQWIHGPQSARIFRTFEKIVLEELLEPLGYREMIFP` `_______________________________________159______________________________________________________________________________` `________________________________________________________________________________________________________________________` `2cim(A) : KLVTWEVWMKSGHAKGVYPEIYYVCPPQTRDPDYWEEVADYYKVTHEVPTKLIKEKIAEPIGGMCYAQCPPFWMYVAGETLPNEEIPVKVFDRSGTSHRYESGGIHGIERVDEFHRIEIV` `:` `2cim(B) : KLVTWEVWMKSGHAKGVYPEIYYVCPPQTRDPDYWEEVADYYKVTHEVPTKLIKEKIAEPIGGMCYAQCPPFWMYVAGETLPNEEIPVKVFDRSGTSHRYESGGIHGIERVDEFHRIEIV` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `2cim(A) : WIGTKEEVLKCAEELHDRYMHIFNDILDIEWRKARVTnTVGTTDYEACLPYRGPDGEWLEFQNVSINGDKYPKGFNVKLQSGDELWSGCSGVGLERWAAVFLAQKGLDPANWPEEFRNRV` `:` `2cim(B) : WIGTKEEVLKCAEELHDRYMHIFNDILDIEWRKARVTnTVGTTDYEACLPYRGPDGEWLEFQNVSINGDKYPKGFNVKLQSGDELWSGCSGVGLERWAAVFLAQKGLDPANWPEEFRNRV` `________________________________________________________________________________________________________________________` `__________` `2cim(A) : GEMPKGIRFL` `:` `2cim(B) : GEMPKGIRFL` `__________`

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)	22.6
Translation (A)	0.5
Closure (%)	82.3
Bending Residues ( green )	159 - 170
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification:

No Contacts

PyMOL Script

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