4W2I

Crystal structure of the Thermus thermophilus 70S ribosome in complex with negamycin, mRNA and three deacylated tRNAs in the A, P and E sites

This is a large structure.

Summary for 4W2I

Integrates4RBH 4RBI 4RBJ 4RBK
Descriptor16S Ribosomal RNA, 30S Ribosomal Protein S2, 30S Ribosomal Protein S3, ... (61 entities in total)
Functional Keywordsnegamycin, antibiotic, 70s ribosome, inhibition of translation, miscoding, translocation inhibitor, 30s subunit with negamycin, mrna, deacylated a-, p-, and e-site trnas of the 1st 70s ribosome in the asu, functional complex of bacterial 70s ribosome with antibiotic negamycin, 50s subunit of the 1st 70s ribosome in the asu, ribosome-antibiotic complex, ribosome/antibiotic
Biological sourceEscherichia coli
More
Total number of polymer chains112
Total molecular weight4555295.77
Authors
Polikanov, Y.S.,Szal, T.,Jiang, F.,Gupta, P.,Matsuda, R.,Shiozuka, M.,Steitz, T.A.,Vazquez-Laslop, N.,Mankin, A.S. (deposition date: 2014-09-12, release date: 2014-10-15, Last modification date: 2018-01-24)
Primary citation
Polikanov, Y.S.,Szal, T.,Jiang, F.,Gupta, P.,Matsuda, R.,Shiozuka, M.,Steitz, T.A.,Vazquez-Laslop, N.,Mankin, A.S.
Negamycin Interferes with Decoding and Translocation by Simultaneous Interaction with rRNA and tRNA.
Mol.Cell, 56:541-550, 2014
PubMed: 25306922 (PDB entries with the same primary citation)
DOI: 10.1016/j.molcel.2014.09.021
MImport into Mendeley
Experimental method
X-RAY DIFFRACTION (2.7 Å)
?

Structure validation

RfreeClashscoreRamachandran outliersSidechain outliersRSRZ outliersRNA backbone0.257121.2%8.7%7.0%0.51MetricValuePercentile RanksWorseBetterPercentile relative to all X-ray structuresPercentile relative to X-ray structures of similar resolution

More Asymmetric unit images

Molmil generated image of 4w2i
no rotation
Molmil generated image of 4w2i
rotated about x axis by 90°
Molmil generated image of 4w2i
rotated about y axis by 90°
PDBj@FacebookPDBj@TwitterwwPDBwwPDB Foundation

Copyright © 2013-2019 Protein Data Bank Japan