1J5A Ribosome date Mar 06, 2002
title Structural Basis For The Interaction Of Antibiotics With The Peptidyl Transferase Center In Eubacteria
authors F.Schluenzen, R.Zarivach, J.Harms, A.Bashan, A.Tocilj, R.Albrecht, A.Yonath, F.Franceschi
compound source
Molecule: 23s Rrna
Chain: A
Organism_scientific: Deinococcus Radiodurans
Organism_taxid: 1299

Molecule: Ribosomal Protein L4
Chain: K

Organism_scientific: Deinococcus Radiodurans
Organism_taxid: 1299

Molecule: Ribosomal Protein L22
Chain: L

Organism_scientific: Deinococcus Radiodurans
Organism_taxid: 1299

Molecule: Ribosomal Protein L32
Chain: M
Synonym: 50s Ribosomal Protein L32

Organism_scientific: Deinococcus Radiodurans
Organism_taxid: 1299
symmetry Space Group: I 2 2 2
R_factor 0.273 R_Free 0.323
crystal
cell
length a length b length c angle alpha angle beta angle gamma
169.900 412.700 697.000 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.50 Å
ligand CTY, MG enzyme
note 1J5A supersedes 1K00
Gene
Ontology
ChainFunctionProcessComponent
K


L


M


Primary referenceStructural basis for the interaction of antibiotics with the peptidyl transferase centre in eubacteria., Schlunzen F, Zarivach R, Harms J, Bashan A, Tocilj A, Albrecht R, Yonath A, Franceschi F, Nature 2001 Oct 25;413(6858):814-21. PMID:11677599
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1051 Kb) [Save to disk]
  • Biological Unit Coordinates (1j5a.pdb1.gz) 1046 Kb
  • LPC: Ligand-Protein Contacts for 1J5A
  • CSU: Contacts of Structural Units for 1J5A
  • Likely Quarternary Molecular Structure file(s) for 1J5A
  • Retrieve 1J5A in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1J5A from S2C, [Save to disk]
  • View 1J5A in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 1J5A
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1J5A, from MSDmotif at EBI
  • Structure summary from SCOR (Structural Classification of RNA)
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1j5aa_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1j5ak_, region K [Jmol] [rasmolscript] [script source]
        - Domain d1j5al_, region L [Jmol] [rasmolscript] [script source]
        - Domain d1j5am_, region M [Jmol] [rasmolscript] [script source]
  • Fold representative 1j5a from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1j5a_K] [1j5a_M] [1j5a_L] [1j5a] [1j5a_A]
  • SWISS-PROT database: [Q9RXJ7] [P49228] [Q9RXK1]
  • Domain organization of [RL22_DEIRA] [RL32_DEIRA] [RL4_DEIRA] by SWISSPFAM
  • Other resources with information on 1J5A
  • Community annotation for 1J5A at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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