1C04 Ribosome date Jul 14, 1999
title Identification Of Known Protein And Rna Structures In A 5 A Map Of The Large Ribosomal Subunit From Haloarcula Marismortui
authors N.Ban, P.Nissen, M.Capel, P.B.Moore, T.A.Steitz
compound source
Molecule: 23s Rrna Fragment
Chain: E
Fragment: 23s Rrna 1151-1208 Region
Other_details: Rna E. Coli Sequence And Model
Organism_scientific: Haloarcula Marismortui
Organism_taxid: 2238

Molecule: 23s Rrna Fragment
Chain: F
Fragment: 23s Rrna Helix 95
Other_details: Rna Rat Sequence And Model

Organism_scientific: Haloarcula Marismortui
Organism_taxid: 2238

Molecule: Ribosomal Protein L2
Chain: A
Fragment: Central Rna-Binding Domains
Other_details: Modeled By Analogous Protein Of B. Stearothermophilus Taken From Pdb Entry 1rl2;

Organism_scientific: Haloarcula Marismortui
Organism_taxid: 2238

Molecule: Ribosomal Protein L6
Chain: B
Other_details: Modeled By Analogous Protein Of B. Stearothermophilus Taken From Pdb Entry 1rl6;

Organism_scientific: Haloarcula Marismortui
Organism_taxid: 2238

Molecule: Ribosomal Protein L11
Chain: C
Fragment: C-Terminal Domain
Other_details: Modeled By Analogous Protein Of B. Stearothermophilus Taken From Pdb Entry 1qa6;

Organism_scientific: Haloarcula Marismortui
Organism_taxid: 2238

Molecule: Ribosomal Protein L14
Chain: D
Other_details: Modeled By Analogous Protein Of B. Stearothermophilus Taken From Pdb Entry 1whi

Organism_scientific: Haloarcula Marismortui
Organism_taxid: 2238
symmetry Space Group: C 2 2 21
R_factor
R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
212.000 301.400 576.300 90.00 90.00 90.00
method X-Ray Diffractionresolution 5.00 Å
ligand MSE enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


B


C


D


Primary referencePlacement of protein and RNA structures into a 5 A-resolution map of the 50S ribosomal subunit., Ban N, Nissen P, Hansen J, Capel M, Moore PB, Steitz TA, Nature 1999 Aug 26;400(6747):841-7. PMID:10476961
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (116 Kb) [Save to disk]
  • Biological Unit Coordinates (1c04.pdb1.gz) 108 Kb
  • LPC: Ligand-Protein Contacts for 1C04
  • CSU: Contacts of Structural Units for 1C04
  • Likely Quarternary Molecular Structure file(s) for 1C04
  • Retrieve 1C04 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1C04 from S2C, [Save to disk]
  • View 1C04 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 1C04
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1C04, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1c04a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1c04b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1c04c_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1c04d_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1c04e_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1c04f_, region F [Jmol] [rasmolscript] [script source]
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1c04_E] [1c04_F] [1c04_A] [1c04] [1c04_C] [1c04_B] [1c04_D]
  • SWISS-PROT database: [P14122] [P22450] [P20276] [P14135]
  • Domain organization of [RL11_HALMA] [RL14_HALMA] [RL2_HALMA] [RL6_HALMA] by SWISSPFAM
  • Domains found in 1C04: [RL11] [Ribosomal_L14] [Ribosomal_L2] [Ribosomal_L2_C ] by SMART
  • Other resources with information on 1C04
  • Community annotation for 1C04 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Domain movements in 1C04 from the Database of Macromolecular Movements.
  • Images from IMB Jena Image Library of Biological Macromolecules.

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