DynDom - Protein Domain Motions

Glycyl-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	Glycyl-Trna Synthetase
Conformer 1 (PDB)	2pme (A)
Conformer 2 (PDB)	2zt6 (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	420	1.19	67 - 142 227 - 243 247 - 279 282 - 291 297 - 671
2	94	0.88	143 - 226 244 - 246 280 - 281 292 - 296

Sequence

`____________________________________________________________________________141_________________________________________` `2pme(A) : DIVDRAKMEDTLKRRFFYDQAFAIYGGVSGLYDFGPVGCALKNNIIQTWRQHFIQEEQILEIDCTMLTPEPVLKTSGHVDKFADFMVKDVKNGECFRADHLLKAHLQKLMSDKKCSVEKK` `:` `2zt6(A) : IVDRAKMEDTLKRRFFYDQAFAIYGGVSGLYDFGPVGCALKNNIIQTWRQHFIQEEQILEIDCTMLTPEPVLKTSGHVDKFADFMVKDVKNGECFRADHLLKAHLQKLMSDKKCSVEKK` `____________________________________________________________________________141_________________________________________` `_________________________________________226______________243_________________________________279_________291__296______` `2pme(A) : SEMESVLAQLDNYGQQELADLFVNYNVKSPITGNDLSPPVSFNLMFKTFIGPGGNMPGYLRPETAQGIFLNFKRLLEFNQGKLPFAAAQIGNSFRNEISPRSGLIRVREFTMAEIEHFVD` `:` `2zt6(A) : SEMESVLAQLDNYGQQELADLFVNYNVKSPITGNDLSPPVSFNLMFKTFIGPGGNMPGYLRPETAQGIFLNFKRLLEFNQGKLPFAAAQIGNSFRNEISPRSGLIRVREFTMAEIEHFVD` `_________________________________________226______________243_________________________________279_________291__296______` `________________________________________________________________________________________________________________________` `2pme(A) : PSEKDHPKFQNVADLHLYLYSAKAQVSGQSARKMRLGDAVEQGVINNTVLGYFIGRIYLYLTKVGISPDKLRFRQHMEN-----aCDCWDAESKTSYGWIEIVGCADRSCYDLSCHARkR` `:` `2zt6(A) : PSEKDHPKFQNVADLHLYLYSAKAQVSGQSARKMRLGDAVEQGVINNTVLGYFIGRIYLYLTKVGISPDKLRFRQHMENEMAHYACDCWDAESKTSYGWIEIVGCADRSCYDLSCHARAT` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `2pme(A) :` `----FQKTLYVEEVVPNVIEPSFGLGRIMYTVFEHTFHVREG--qRTFFSFPAVVAPFKCSVLPLSQNQEFMPFVKELSEALTRHGVSHKVDDSSGSIGRRYARTDEIGVAFGVTIDFDT` `:` `2zt6(A) :` `KVPLVAEKPyVEEVVPNVIEPSFGLGRIMYTVFEHTFHVREGDEQRTFFSFPAVVAPFKCSVLPLSQNQEFMPFVKELSEALTRHGVSHKVDDSSGSIGRRYARTDEIGVAFGVTIDFDT` `________________________________________________________________________________________________________________________` `____________________________________________________` `2pme(A) : VNKTPHTATLRDRDSMRQIRAEISELPSIVQDLANGNITWADVEARYPLFEG` `:` `2zt6(A) : VNKTPHTATLRDRDSMRQIRAEISELPSIVQDLANGNITWADVEARYPLFE` `____________________________________________________`

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)	12.7
Translation (A)	-1.0
Closure (%)	76.9
Bending Residues ( green )	141 - 143 226 - 227 243 - 244 246 - 247 279 - 282 291 - 292 296 - 297
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Mixed

PyMOL Script

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