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)	1qtq (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	368	1.11	10 - 32 36 - 66 74 - 78 83 - 99 217 - 219 222 - 228 230 - 235 252 - 256 259 - 544
2	151	1.12	33 - 35 67 - 73 79 - 82 100 - 216 220 - 221 229 - 229 236 - 251 257 - 258

Sequence

`_______________________32_______________________________65__69_______78__82_______________99____________________________` `1nyl(A) : TNFIRQIIDEDLASGKHTTVHTRFPPEPNGYLHIGHAKSICLNFGIAQDYKGQCNLRFDDTNP-kEDIEYVESIKNDVEWLGFHWSGNVRYSSDYFDQLHAYAIELINKGLAYVDELTPE` `:` `1qtq(A) : TNFIRQIIDEDLASGKHTTVHTRFPPEPNGYLHIGHAKSICLNFGIAQDYKGQCNLRFDDTNPVKEDIEYVESIKNDVEWLGFHWSGNVRYSSDYFDQLHAYAIELINKGLAYVDELTPE` `_______________________32_______________________________65__69_______78__82_______________99____________________________` `______________________________________________________________________________________216_________228____235____________` `1nyl(A) : QIREYRGTLTQPGKNSPYRDRSVEENLALFEKMRAGGFEEGKACLRAKIDMASPFIVMRDPVLYRIKFAEHHQTGNKWCIYPMYDFTHCISDALEGITHSLCTLEFQDNRRLYDWVLDNI` `:` `1qtq(A) : QIREYRGTLTQPGKNSPYRDRSVEENLALFEKMRAGGFEEGKACLRAKIDMASPFIVMRDPVLYRIKFAEHHQTGNKWCIYPMYDFTHCISDALEGITHSLCTLEFQDNRRLYDWVLDNI` `______________________________________________________________________________________216_________228____235____________` `_251__256_______________________________________________________________________________________________________________` `1nyl(A) : TIPVHPRQYEFSRLNLEYTVMSKRKLNLLVTDKHVEGWDDPRMPTISGLRRRGYTAASIREFCKRIGV-kQDNTIEMASLESCIREDLNENAPRAMAVIDPVKLVIENYQGEGEMVTMPN` `:` `1qtq(A) : TIPVHPRQYEFSRLNLEYTVMSKRKLNLLVTDKHVEGWDDPRMPTISGLRRRGYTAASIREFCKRIGVTKQDNTIEMASLESCIREDLNENAPRAMAVIDPVKLVIENYQGEGEMVTMPN` `_251__256_______________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1nyl(A) : HPN-pEMGSRQVPFSGEIWIDRADFREEANKQYKRLVLGKEVRLRNAYVIKAERVEKDAEGNITTIFCTYDADTL-vIHWVSAAHALPVEIRLYDRLFSVPNPGAADDFLSVINPESLVI` `:` `1qtq(A) : HPNKPEMGSRQVPFSGEIWIDRADFREEANKQYKRLVLGKEVRLRNAYVIKAERVEKDAEGNITTIFCTYDADTLgVIHWVSAAHALPVEIRLYDRLFSVPNPGAADDFLSVINPESLVI` `________________________________________________________________________________________________________________________` `_________________________________________________` `1nyl(A) : KQGFAEPSLKDAVAGKAFQFEREGYFCLDSRH-tAEKPVFNRTVGLRD*` `:` `1qtq(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)	8.4
Translation (A)	-0.4
Closure (%)	87.6
Bending Residues ( green )	32 - 36 65 - 67 69 - 76 78 - 79 82 - 83 99 - 100 216 - 217 219 - 222 228 - 230 235 - 236 251 - 252 256 - 259
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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