4V7H Structure of the 80S rRNA and proteins and P/E tRNA for eukaryotic ribosome based on cryo-EM map of Thermomyces lanuginosus ribosome at 8.9A resolution date
authors Taylor, D.J., Devkota, B., Huang, A.D., Topf, M., Narayanan, E., Sali, A., Harvey, S.C., Frank, J.
compound source
symmetry
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 8.90
note 4V7H supersedes 3JYV, 3JYW, 3JYX
Gene
Ontology
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Primary referenceComprehensive molecular structure of the eukaryotic ribosome., Taylor DJ, Devkota B, Huang AD, Topf M, Narayanan E, Sali A, Harvey SC, Frank J, Structure. 2009 Dec 9;17(12):1591-604. PMID:20004163
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1655 Kb) [Save to disk]
  • CSU: Contacts of Structural Units for 4V7H
  • Retrieve 4V7H in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4V7H from S2C, [Save to disk]
  • View 4V7H 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 4V7H
  • 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 4v7h from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4v7h_BB] [4v7h_B1] [4v7h_B2] [4v7h_BH] [4v7h_BO] [4v7h_BR] [4v7h_A7] [4v7h_BQ] [4v7h_BD] [4v7h_BJ] [4v7h_BC] [4v7h_AE] [4v7h_BG] [4v7h_BP] [4v7h_AJ] [4v7h_AC] [4v7h_AD] [4v7h_BT] [4v7h_AB] [4v7h_BF] [4v7h_B3] [4v7h_AL] [4v7h_AK] [4v7h_B9] [4v7h_AN] [4v7h_AO] [4v7h_BW] [4v7h_AG] [4v7h_AM] [4v7h_B0] [4v7h_AH] [4v7h_B5] [4v7h_AI] [4v7h_AS] [4v7h_BS] [4v7h_BK] [4v7h_AT] [4v7h_BA] [4v7h_BM] [4v7h_BZ] [4v7h_BN] [4v7h_BU] [4v7h_B4] [4v7h_BE] [4v7h_BY] [4v7h_AR] [4v7h_B8] [4v7h_BL] [4v7h_BV] [4v7h] [4v7h_AA] [4v7h_BX] [4v7h_AQ] [4v7h_BI]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4V7H: [KH] [KOW] [RL11] [Ribosomal_L14] [Ribosomal_L15e] [Ribosomal_L19e] [Ribosomal_L2] [Ribosomal_L2_C] [Ribosomal_L31e] [Ribosomal_L32e] [Ribosomal_S10] [Ribosomal_S15] [Ribosomal_S19e] [Ribosomal_S4] [S4] [WD40 ] by SMART
  • Other resources with information on 4V7H
  • Community annotation for 4V7H at PDBWiki (http://pdbwiki.org)

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