1NJM	Ribosome	date	Jan 02, 2003
title	The Crystal Structure Of The 50s Large Ribosomal Subunit Fro Deinococcus Radiodurans Complexed With A Trna Acceptor Stem (Asm) And The Antibiotic Sparsomycin
authors	A.Bashan, I.Agmon, R.Zarivatch, F.Schluenzen, J.M.Harms, R.Berisi H.Bartels, H.A.Hansen, A.Yonath
compound		source
Molecule: 23s Ribosomal Rna Chain		Organism_scientific: Deinococcus Radiodurans Organism_taxid: 1299
Molecule: Trna Acceptor Stem Mimic Chain: 5 Engineered: Yes		Synthetic: Yes Other_details: The Terminal C Of Asm Was Coupled Via A Phosphodiester Bond To The 5 Oh Of The N6-Dimethyl Moiety O Puromycin;
Molecule: 50s Ribosomal Protein L16 Chain: K		Organism_scientific: Deinococcus Radiodurans Organism_taxid: 1299
Molecule: General Stress Protein Ctc Chain: T		Organism_scientific: Deinococcus Radiodurans Organism_taxid: 1299
symmetry	Space Group: I 2 2 2	R_factor 0.284 R_Free 0.308
crystal cell	length a length b length c angle alpha angle beta angle gamma 169.600 409.400 695.100 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	3.60 Å
ligand	PPU, SPS	enzyme
Gene Ontology	Chain Function Process Component K T
Primary reference	Structural basis of the ribosomal machinery for peptide bond formation, translocation, and nascent chain progression., Bashan A, Agmon I, Zarivach R, Schluenzen F, Harms J, Berisio R, Bartels H, Franceschi F, Auerbach T, Hansen HA, Kossoy E, Kessler M, Yonath A, Mol Cell 2003 Jan;11(1):91-102. PMID:12535524

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1018 Kb) [Save to disk] Biological Unit Coordinates (1njm.pdb1.gz) 1013 Kb LPC: Ligand-Protein Contacts for 1NJM CSU: Contacts of Structural Units for 1NJM Likely Quarternary Molecular Structure file(s) for 1NJM Retrieve 1NJM in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1NJM from S2C, [Save to disk]

View 1NJM 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 1NJM

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1NJM, from MSDmotif at EBI Structure summary from SCOR (Structural Classification of RNA) Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1njm0_, region 0 [Jmol] [rasmolscript] [script source]     - Domain d1njmk_, region K [Jmol] [rasmolscript] [script source]     - Domain d1njmt_, region T [Jmol] [rasmolscript] [script source]

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1njm_5] [1njm_0] [1njm_K] [1njm] [1njm_T] SWISS-PROT database: [Q9RXJ5] [Q9RX88] Domain organization of [RL16_DEIRA] [RL25_DEIRA] by SWISSPFAM

Other resources with information on 1NJM

Community annotation for 1NJM at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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Images from IMB Jena Image Library of Biological Macromolecules.

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