DynDom - Protein Domain Motions

Glutaminyl-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	Glutaminyl-Trna Synthetase
Conformer 1 (PDB)	1nyl (A)
Conformer 2 (PDB)	1o0c (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	378	1.11	10 - 32 36 - 67 74 - 98 217 - 236 252 - 544
2	141	0.93	33 - 35 68 - 73 99 - 216 237 - 251

Sequence

`_______________________32________________________________66______________________________98_____________________________` `1nyl(A) : TNFIRQIIDEDLASGKHTTVHTRFPPEPNGYLHIGHAKSICLNFGIAQDYKGQCNLRFDDTNP-kEDIEYVESIKNDVEWLGFHWSGNVRYSSDYFDQLHAYAIELINKGLAYVDELTPE` `:` `1o0c(A) : TNFIRQIIDEDLASGKHTTVHTRFPPEPNGYLHIGHAKSICLNFGIAQDYKGQCNLRFDDTNPVKEDIEYVESIKNDVEWLGFHWSGNVRYSSDYFDQLHAYAIELINKGLAYVDELTPE` `_______________________32________________________________66______________________________98_____________________________` `______________________________________________________________________________________216_________________236___________` `1nyl(A) : QIREYRGTLTQPGKNSPYRDRSVEENLALFEKMRAGGFEEGKACLRAKIDMASPFIVMRDPVLYRIKFAEHHQTGNKWCIYPMYDFTHCISDALEGITHSLCTLEFQDNRRLYDWVLDNI` `:` `1o0c(A) : QIREYRGTLTQPGKNSPYRDRSVEENLALFEKMRAGGFEEGKACLRAKIDMASPFIVMRDPVLYRIKFAEHHQTGNKWCIYPMYDFTHCISDALEGITHSLCTLEFQDNRRLYDWVLDNI` `______________________________________________________________________________________216_________________236___________` `_251____________________________________________________________________________________________________________________` `1nyl(A) : TIPVHPRQYEFSRLNLEYTVMSKRKLNLLVTDKHVEGWDDPRMPTISGLRRRGYTAASIREFCKRIGV-kQDNTIEMASLESCIREDLNENAPRAMAVIDPVKLVIENYQGEGEMVTMPN` `:` `1o0c(A) : TIPVHPRQYEFSRLNLEYTVMSKRKLNLLVTDKHVEGWDDPRMPTISGLRRRGYTAASIREFCKRIGVTKQDNTIEMASLESCIREDLNENAPRAMAVIDPVKLVIENYQGEGEMVTMPN` `_251____________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1nyl(A) : HPN-pEMGSRQVPFSGEIWIDRADFREEANKQYKRLVLGKEVRLRNAYVIKAERVEKDAEGNITTIFCTYDADTL-vIHWVSAAHALPVEIRLYDRLFSVPNPGAADDFLSVINPESLVI` `:` `1o0c(A) : HPNKPEMGSRQVPFSGEIWIDRADFREEANKQYKRLVLGKEVRLRNAYVIKAERVEKDAEGNITTIFCTYDADTLgVIHWVSAAHALPVEIRLYDRLFSVPNPGAADDFLSVINPESLVI` `________________________________________________________________________________________________________________________` `_________________________________________________` `1nyl(A) : KQGFAEPSLKDAVAGKAFQFEREGYFCLDSRH-tAEKPVFNRTVGLRD*` `:` `1o0c(A) : KQGFAEPSLKDAVAGKAFQFEREGYFCLDSRHSTAEKPVFNRTVGLRDT` `_________________________________________________`

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)	9.9
Translation (A)	-0.5
Closure (%)	88.9
Bending Residues ( green )	32 - 36 66 - 75 98 - 99 216 - 217 236 - 237 251 - 252
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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