5V58

Crystal structure of human prolyl-tRNA synthetase in complex with Aze-SA

Summary for 5V58

Related5V59
DescriptorBifunctional glutamate/proline--tRNA ligase, 5'-O-{[(2S)-azetidine-2-carbonyl]sulfamoyl}adenosine, ZINC ION, ... (4 entities in total)
Functional Keywordsligase, aminoacyl-trna synthetase, non-proteinogenic amino acids
Biological sourceHomo sapiens (Human)
Cellular locationCytoplasm, cytosol  P07814
Total number of polymer chains1
Total molecular weight59558.27
Authors
Zhou, H.,Song, Y.,Schimmel, P. (deposition date: 2017-03-13, release date: 2018-01-10)
Primary citation
Song, Y.,Zhou, H.,Vo, M.N.,Shi, Y.,Nawaz, M.H.,Vargas-Rodriguez, O.,Diedrich, J.K.,Yates, J.R.,Kishi, S.,Musier-Forsyth, K.,Schimmel, P.
Double mimicry evades tRNA synthetase editing by toxic vegetable-sourced non-proteinogenic amino acid.
Nat Commun, 8:2281-2281, 2017
PubMed: 29273753 (PDB entries with the same primary citation)
DOI: 10.1038/s41467-017-02201-z
MImport into Mendeley
Experimental method
X-RAY DIFFRACTION (2.59 Å)
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Structure validation

RfreeClashscoreRamachandran outliersSidechain outliersRSRZ outliers0.270103.3%3.6%MetricValuePercentile RanksWorseBetterPercentile relative to all X-ray structuresPercentile relative to X-ray structures of similar resolution

More Asymmetric unit images

Molmil generated image of 5v58
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Molmil generated image of 5v58
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Molmil generated image of 5v58
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More Biological unit images

Molmil generated image of 5v58
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Molmil generated image of 5v58
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Molmil generated image of 5v58
rotated about y axis by 90°
(*)In the case of coarse surface representation, the asymmetric unit is shown as red ribbon representation.
Coordinate files for Biological unit (5v58.pdb1.gz [152.97 KB])
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