4V6M Ribosome Ribosomal Protein date 1-0 20, 2000
authors J.Frauenfeld, J.Gumbart, E.O.Van Der Sluis, S.Funes, M.Gartm B.Beatrix, T.Mielke, O.Berninghausen, T.Becker, K.Schulten, R.Beckmann
compound source
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method X-Ray Diffractionresolution
note 4V6M supersedes 3J00, 3J01
Gene
Ontology
ChainFunctionProcessComponent
A1, A0


AB


AC


AD


AE


AF


AG


AH


AI


AJ


AK


AL


AM


AN


AO


AP
  • nuclease activity
  • endonuclease activity
  • endodeoxyribonuclease activi...


  • AQ


    AR


    AS


    AT
  • ornithine decarboxylase inhi...


  • AU


    B0


    B1


    B2


    B3


    B4


    B5


    B6


    BA
  • intracellular protein transm...

  • BB
  • protein targeting

  • BD


    BE
  • translation repressor activi...


  • BF


    BG


    BH


    BI


    BJ


    BK


    BL


    BM


    BN


    BO


    BP


    BQ
  • translation repressor activi...


  • BR


    BS


    BT


    BU


    BV


    BW


    BX


    BY


    BZ


    Primary referenceCryo-EM structure of the ribosome-SecYE complex in the membrane environment., Frauenfeld J, Gumbart J, Sluis EO, Funes S, Gartmann M, Beatrix B, Mielke T, Berninghausen O, Becker T, Schulten K, Beckmann R, Nat Struct Mol Biol. 2011 May;18(5):614-21. Epub 2011 Apr 17. PMID:21499241
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1092 Kb) [Save to disk]
  • CSU: Contacts of Structural Units for 4V6M
  • Retrieve 4V6M in mmCIF format [Save to disk]
  • View 4V6M 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 4V6M
  • 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
  • Fold representative 4v6m from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4v6m_AP] [4v6m_BA] [4v6m_B8] [4v6m_AU] [4v6m_BL] [4v6m_AA] [4v6m_A1] [4v6m_BK] [4v6m_AR] [4v6m_AM] [4v6m_AJ] [4v6m_BO] [4v6m_BU] [4v6m_BD] [4v6m_AT] [4v6m_A0] [4v6m_BB] [4v6m_AH] [4v6m_B0] [4v6m_BY] [4v6m_AF] [4v6m_AS] [4v6m_BN] [4v6m_BM] [4v6m_BJ] [4v6m_AG] [4v6m_BT] [4v6m_AC] [4v6m_AL] [4v6m_B1] [4v6m_BS] [4v6m_BI] [4v6m_AN] [4v6m_AE] [4v6m_B2] [4v6m_AB] [4v6m_BH] [4v6m_AQ] [4v6m_BQ] [4v6m_BZ] [4v6m_B7] [4v6m_B3] [4v6m_AO] [4v6m_B4] [4v6m_BE] [4v6m_BG] [4v6m_BW] [4v6m_AZ] [4v6m_AV] [4v6m_B5] [4v6m_BR] [4v6m_AK] [4v6m_AX] [4v6m_B6] [4v6m_BX] [4v6m_AD] [4v6m_BV] [4v6m_BF] [4v6m_AI] [4v6m_BP] [4v6m]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4V6M
  • Community annotation for 4V6M at PDBWiki (http://pdbwiki.org)

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