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)	2cj9 (A)
Conformer 2 (PDB)	2cj9 (B)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	336	0.28	165 - 500
2	133	1.45	2 - 157

Sequence

`________________________________________________________________________________________________________________________` `2cj9(A) : *SHMKLQFNLKAYF--------aKDAIAALFEEANSTLLTRGAPEGQGAKVTEW----dRIELTLQSGRYVRVHDAIFRLRKQLAE--gIEVESFIIKVPADHELRMLKVPYIKSMENIE` `:` `2cj9(B) : GSHMKLQFNLKAYFKTSADPTPAKDAIAALFEEANSTLLTRGAPEGQGAKVTEWKLGEDRIELTLQSGRYVRVHDAIFRLRKQLAEALgIEVESFIIKVPADHELRMLKVPYIKSMENIE` `________________________________________________________________________________________________________________________` `____________________________157_________________________________________________________________________________________` `2cj9(A) : GGIQLELEVGEAEMKNRVPDRILTLLEEKIEAAk-AEHWNLLWQREPMEHPFKEDPTQAMMKEGWLKRGSSRGQWIHGPQSARIFRTFEKIVLEELLEPLGYREMIFPKLVTWEVWMKSG` `:` `2cj9(B) : GGIQLELEVGEAEMKNRVPDRILTLLEEKIEAAQYaEHWNLLWQREPMEHPFKEDPTQAMMKEGWLKRGSSRGQWIHGPQSARIFRTFEKIVLEELLEPLGYREMIFPKLVTWEVWMKSG` `____________________________157_________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `2cj9(A) : HAKGVYPEIYYVCPPQTRDPDYWEEVADYYKVTHEVPTKLIKEKIAEPIGGMCYAQCPPFWMYVAGETLPNEEIPVKVFDRSGTSHRYESGGIHGIERVDEFHRIEIVWIGTKEEVLKCA` `:` `2cj9(B) : HAKGVYPEIYYVCPPQTRDPDYWEEVADYYKVTHEVPTKLIKEKIAEPIGGMCYAQCPPFWMYVAGETLPNEEIPVKVFDRSGTSHRYESGGIHGIERVDEFHRIEIVWIGTKEEVLKCA` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `2cj9(A) : EELHDRYMHIFNDILDIEWRKARVTPWFMAQEGLLGLAEENTVGTTDYEACLPYRGPDGEWLEFQNVSINGDKYPKGFNVKLQSGDELWSGCSGVGLERWAAVFLAQKGLDPANWPEEFR` `:` `2cj9(B) : EELHDRYMHIFNDILDIEWRKARVTPWFMAQEGLLGLAEENTVGTTDYEACLPYRGPDGEWLEFQNVSINGDKYPKGFNVKLQSGDELWSGCSGVGLERWAAVFLAQKGLDPANWPEEFR` `________________________________________________________________________________________________________________________` `_____________` `2cj9(A) : NRVGEMPKGIRFL` `:` `2cj9(B) : NRVGEMPKGIRFL` `_____________`

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)	19.9
Translation (A)	0.9
Closure (%)	76.2
Bending Residues ( green )	157 - 173
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Hinge

PyMOL Script

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