1QD7 Ribosome date Jul 09, 1999
title Partial Model For 30s Ribosomal Subunit
authors W.M.Clemons Jr., J.L.C.May, B.T.Wimberly, J.P.Mccutcheon, M.S.Capel, V.Ramakrishnan
compound source
Molecule: Central Fragment Of 16 S Rna
Chain: A
Fragment: Residues 563-912
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: End Fragment Of 16 S Rna
Chain: B
Fragment: Residues 1400-1500

Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: S4 Ribosomal Protein
Chain: C

Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: S5 Ribosomal Protein
Chain: D

Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: S6 Ribosomal Protein
Chain: E

Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: S7 Ribosomal Protein
Chain: F

Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: S8 Ribosomal Protein
Chain: G

Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: S15 Ribosomal Protein
Chain: H

Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: S17 Ribosomal Protein
Chain: I

Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: S20 Ribosomal Protein
Chain: J

Organism_scientific: Thermus Thermophilus
Organism_taxid: 274
symmetry Space Group: P 41 21 2
R_factor
R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
401.600 401.600 174.500 90.00 90.00 90.00
method X-Ray Diffractionresolution 5.50 Å
Gene
Ontology
ChainFunctionProcessComponent
C


D


E


F


G


H


I


Primary referenceStructure of a bacterial 30S ribosomal subunit at 5.5 A resolution., Clemons WM Jr, May JL, Wimberly BT, McCutcheon JP, Capel MS, Ramakrishnan V, Nature 1999 Aug 26;400(6747):833-40. PMID:10476960
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (34 Kb) [Save to disk]
  • Biological Unit Coordinates (1qd7.pdb1.gz) 30 Kb
  • CSU: Contacts of Structural Units for 1QD7
  • Likely Quarternary Molecular Structure file(s) for 1QD7
  • Retrieve 1QD7 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1QD7 from S2C, [Save to disk]
  • View 1QD7 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 1QD7
  • 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
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1qd7a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1qd7b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1qd7c_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1qd7d_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1qd7e_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1qd7f_, region F [Jmol] [rasmolscript] [script source]
        - Domain d1qd7g_, region G [Jmol] [rasmolscript] [script source]
        - Domain d1qd7h_, region H [Jmol] [rasmolscript] [script source]
        - Domain d1qd7i_, region I [Jmol] [rasmolscript] [script source]
        - Domain d1qd7j_, region J [Jmol] [rasmolscript] [script source]
  • Fold representative 1qd7 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1qd7_C] [1qd7_D] [1qd7_A] [1qd7_F] [1qd7_G] [1qd7_E] [1qd7_B] [1qd7_J] [1qd7_H] [1qd7] [1qd7_I]
  • SWISS-PROT database: [Q5SJ76] [P80373] [Q5SHQ5] [Q5SLP8] [P17291] [Q5SHQ2]
  • Domain organization of [RS15_THET8] [RS4_THET8] [RS5_THET8] [RS6_THET8] [RS7_THET8] [RS8_THET8] by SWISSPFAM
  • Domains found in 1QD7: [Ribosomal_S15] [Ribosomal_S4] [S4 ] by SMART
  • Other resources with information on 1QD7
  • Community annotation for 1QD7 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Domain movements in 1QD7 from the Database of Macromolecular Movements.
  • Images from IMB Jena Image Library of Biological Macromolecules.

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