4V5Z Structure of a mammalian 80S ribosome obtained by docking homology models of the RNA and proteins into an 8.7 A cryo-EM map date
authors Chandramouli, P., Akey, C.W.
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 8.70
note 4V5Z supersedes 2ZKQ, 2ZKR
Gene
Ontology
ChainFunctionProcessComponent
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Primary referenceStructure of the mammalian 80S ribosome at 8.7 A resolution., Chandramouli P, Topf M, Menetret JF, Eswar N, Cannone JJ, Gutell RR, Sali A, Akey CW, Structure. 2008 Apr;16(4):535-48. PMID:18400176
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (626 Kb) [Save to disk]
  • CSU: Contacts of Structural Units for 4V5Z
  • Retrieve 4V5Z in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4V5Z from S2C, [Save to disk]
  • View 4V5Z 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 4V5Z
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4v5z_Bo] [4v5z_Ao] [4v5z_Bx] [4v5z_Be] [4v5z_Aj] [4v5z_Bz] [4v5z_B3] [4v5z] [4v5z_B8] [4v5z_Bk] [4v5z_BE] [4v5z_By] [4v5z_Bp] [4v5z_Ak] [4v5z_AF] [4v5z_Bf] [4v5z_Bl] [4v5z_Bi] [4v5z_BS] [4v5z_Bc] [4v5z_An] [4v5z_BX] [4v5z_B9] [4v5z_Ah] [4v5z_BV] [4v5z_Al] [4v5z_Bu] [4v5z_B0] [4v5z_B6] [4v5z_BF] [4v5z_BU] [4v5z_BK] [4v5z_B4] [4v5z_As] [4v5z_AG] [4v5z_BM] [4v5z_Bg] [4v5z_AC] [4v5z_B5] [4v5z_BO] [4v5z_Bt] [4v5z_Aa] [4v5z_BB] [4v5z_Bs] [4v5z_Bm] [4v5z_BP] [4v5z_BZ] [4v5z_Bw] [4v5z_Ad] [4v5z_AE] [4v5z_B7] [4v5z_Bd] [4v5z_BG] [4v5z_BH] [4v5z_BJ] [4v5z_BR] [4v5z_Ae] [4v5z_B2] [4v5z_AB] [4v5z_B1] [4v5z_BI] [4v5z_BY] [4v5z_AA] [4v5z_Bn] [4v5z_Br] [4v5z_BW] [4v5z_Ag] [4v5z_AD] [4v5z_Ab] [4v5z_Am] [4v5z_BC] [4v5z_Ba] [4v5z_Bj] [4v5z_BA] [4v5z_Bh] [4v5z_BD] [4v5z_BT] [4v5z_BL] [4v5z_Bb] [4v5z_Ai] [4v5z_BN] [4v5z_BQ] [4v5z_Bq] [4v5z_Aq] [4v5z_Bv] [4v5z_AH] [4v5z_Ac]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4V5Z: [KH] [KOW] [RL11] [Ribosomal_L14] [Ribosomal_L15e] [Ribosomal_L19e] [Ribosomal_L2] [Ribosomal_L2_C] [Ribosomal_L31e] [Ribosomal_L32e] [Ribosomal_S10] [Ribosomal_S15] [Ribosomal_S4] [S4] [TRASH] [WD40 ] by SMART
  • Other resources with information on 4V5Z
  • Community annotation for 4V5Z at PDBWiki (http://pdbwiki.org)

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