4V5K Ribosome date 0-0 20, 1998
authors C.L.Ng, K.Lang, N.A.G.Meenan, A.Sharma, A.C.Kelley, C.Kleant V.Ramakrishnan
compound source
symmetry Space Group: P 21 21 21
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
212.041 453.514 616.103 90.00 90.00 90.00
method X-Ray Diffractionresolution
note 4V5K supersedes 2XFZ, 2XG0, 2XG1, 2XG2
Gene
Ontology
ChainFunctionProcessComponent
AB, CB


AC, CC


AH, CH


AI, CI


AL, CL


AM, CM


AN, CN


AO, CO


AS, CS


AT, CT


AU, CU


AY, CY


B0, D0


B1, D1


B3, D3


B4, D4


B6, D6


B7, D7


BC, DC


BE, DE


BF, DF


BN, DN


BO, DO


BQ, DQ


BS, DS


BT, DT


BW, DW


BX, DX


BY, DY


CD, AD


CE, AE


CF, AF


CG, AG


CJ, AJ


CK, AK


CP, AP


CQ, AQ


CR, AR


D2, B2


D5, B5


D8, B8


D9, B9


DD, BD


DG, BG


DH, BH


DI, BI


DP, BP


DR, BR


DU, BU


DV, BV


DZ, BZ


Primary referenceStructural basis for 16S ribosomal RNA cleavage by the cytotoxic domain of colicin E3., Ng CL, Lang K, Meenan NA, Sharma A, Kelley AC, Kleanthous C, Ramakrishnan V, Nat Struct Mol Biol. 2010 Oct;17(10):1241-6. Epub 2010 Sep 19. PMID:20852642
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1208 Kb) [Save to disk]
  • CSU: Contacts of Structural Units for 4V5K
  • Structure Factors (7586 Kb)
  • Retrieve 4V5K in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4V5K from S2C, [Save to disk]
  • View 4V5K 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 4V5K
  • 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 4v5k from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4v5k_AM] [4v5k] [4v5k_DP] [4v5k_CK] [4v5k_CN] [4v5k_BJ] [4v5k_AC] [4v5k_AW] [4v5k_DH] [4v5k_CM] [4v5k_BD] [4v5k_B6] [4v5k_BR] [4v5k_D1] [4v5k_AF] [4v5k_CO] [4v5k_DZ] [4v5k_BN] [4v5k_DT] [4v5k_D4] [4v5k_BP] [4v5k_CS] [4v5k_CI] [4v5k_BV] [4v5k_CH] [4v5k_DQ] [4v5k_B1] [4v5k_D5] [4v5k_DO] [4v5k_DF] [4v5k_B4] [4v5k_DA] [4v5k_AD] [4v5k_DV] [4v5k_DB] [4v5k_BO] [4v5k_B5] [4v5k_AP] [4v5k_CB] [4v5k_D9] [4v5k_D7] [4v5k_DS] [4v5k_D0] [4v5k_BY] [4v5k_AG] [4v5k_AU] [4v5k_B9] [4v5k_DC] [4v5k_CX] [4v5k_BA] [4v5k_BB] [4v5k_DW] [4v5k_B3] [4v5k_DY] [4v5k_B0] [4v5k_CA] [4v5k_DG] [4v5k_AY] [4v5k_BT] [4v5k_BQ] [4v5k_AX] [4v5k_BU] [4v5k_DN] [4v5k_DI] [4v5k_CP] [4v5k_BS] [4v5k_BH] [4v5k_DD] [4v5k_AA] [4v5k_DR] [4v5k_CR] [4v5k_AJ] [4v5k_CL] [4v5k_AI] [4v5k_BF] [4v5k_AL] [4v5k_DJ] [4v5k_D6] [4v5k_DE] [4v5k_AO] [4v5k_CE] [4v5k_BC] [4v5k_CF] [4v5k_BE] [4v5k_CT] [4v5k_AT] [4v5k_BX] [4v5k_AH] [4v5k_BG] [4v5k_AS] [4v5k_D3] [4v5k_AB] [4v5k_CD] [4v5k_CY] [4v5k_AK] [4v5k_CJ] [4v5k_D8] [4v5k_CC] [4v5k_CQ] [4v5k_AN] [4v5k_AQ] [4v5k_AE] [4v5k_D2] [4v5k_CW] [4v5k_BI] [4v5k_BW] [4v5k_CG] [4v5k_DU] [4v5k_B8] [4v5k_AR] [4v5k_CU] [4v5k_DX] [4v5k_AV] [4v5k_B2] [4v5k_B7] [4v5k_CV] [4v5k_BZ]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4V5K: [KH] [KOW] [Ribosomal_L14] [Ribosomal_L2] [Ribosomal_L2_C] [Ribosomal_S10] [Ribosomal_S15] [Ribosomal_S4] [S4 ] by SMART
  • Other resources with information on 4V5K
  • Community annotation for 4V5K at PDBWiki (http://pdbwiki.org)

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