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TitleA novel crystal form of pyrrolysyl-tRNA synthetase reveals the pre- and post-aminoacyl-tRNA synthesis conformational states of the adenylate and aminoacyl moieties and an asparagine residue in the catalytic site
Journal, issue, pagesActa Crystallogr. ,Sect. D, Vol. 69, Page 5-15, Year 2013
Publish dateApr 1, 2012 (structure data deposition date)
AuthorsYanagisawa, T. / Sumida, T. / Ishii, R. / Yokoyama, S.
External linksActa Crystallogr. ,Sect. D / PubMed:23275158
MethodsX-ray diffraction
Resolution1.9 - 2.4 Å
Structure data

PDB-3vqv:
Crystal structure of the catalytic domain of pyrrolysyl-tRNA synthetase in complex with AMPPNP (re-refined)
Method: X-RAY DIFFRACTION / Resolution: 1.9 Å

PDB-3vqw:
Crystal structure of the SeMet substituted catalytic domain of pyrrolysyl-tRNA synthetase
Method: X-RAY DIFFRACTION / Resolution: 2.4 Å

PDB-3vqx:
Crystal structure of the catalytic domain of pyrrolysyl-tRNA synthetase in triclinic crystal form
Method: X-RAY DIFFRACTION / Resolution: 2.3 Å

PDB-3vqy:
Crystal structure of the catalytic domain of pyrrolysyl-tRNA synthetase in complex with BocLys and AMPPNP (form 2)
Method: X-RAY DIFFRACTION / Resolution: 2.4 Å

Chemicals

ChemComp-ANP:
PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER / AMP-PNP, energy-carrying molecule analogue*YM

ChemComp-MG:
Unknown entry

ChemComp-HOH:
WATER

ChemComp-AMP:
ADENOSINE MONOPHOSPHATE / AMP*YM

ChemComp-PO4:
PHOSPHATE ION

ChemComp-BLK:
[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] (2S)-2-azanyl-6-[(2-methylpropan-2-yl)oxycarbonylamino]hexanoate

ChemComp-LBY:
N~6~-(tert-butoxycarbonyl)-L-lysine

Source
  • methanosarcina mazei (archaea)
KeywordsLIGASE / Structural Genomics / NPPSFA / National Project on Protein Structural and Functional Analyses / RIKEN Structural Genomics/Proteomics Initiative / RSGI / aminoacyl-tRNA synthetase / pyrrolysyl-tRNA synthetase / AMPPNP / AMP / BocLys-AMP / BocLys

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