4V8J Crystal structure of the bacterial ribosome ram mutation G347U. date
authors Fagan, C.E., Dunkle, J.A., Maehigashi, T., Dunham, C.M.
compound source
symmetry
R_factor
R_Free 0.2692
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 3.90
note 4V8J supersedes 3V6U, 3V6V, 3V6W, 3V6X
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


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 referenceReorganization of an intersubunit bridge induced by disparate 16S ribosomal ambiguity mutations mimics an EF-Tu-bound state., Fagan CE, Dunkle JA, Maehigashi T, Dang MN, Devaraj A, Miles SJ, Qin D, Fredrick K, Dunham CM, Proc Natl Acad Sci U S A. 2013 Apr 29. PMID:23630274
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (2154 Kb) [Save to disk]
  • CSU: Contacts of Structural Units for 4V8J
  • Structure Factors (3701 Kb)
  • Retrieve 4V8J in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4V8J from S2C, [Save to disk]
  • View 4V8J 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 4V8J
  • 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: [4v8j_DE] [4v8j_AV] [4v8j_CE] [4v8j_B1] [4v8j_AM] [4v8j_BS] [4v8j_D7] [4v8j_CA] [4v8j_D5] [4v8j_AF] [4v8j_AA] [4v8j_D8] [4v8j_DB] [4v8j_D6] [4v8j_B5] [4v8j_BD] [4v8j_BR] [4v8j_AJ] [4v8j_DW] [4v8j_DN] [4v8j_BO] [4v8j_CW] [4v8j_CG] [4v8j_DG] [4v8j_D4] [4v8j_DD] [4v8j_BE] [4v8j_B7] [4v8j_B0] [4v8j_CK] [4v8j_BG] [4v8j_B9] [4v8j_BN] [4v8j_BZ] [4v8j_CI] [4v8j_CS] [4v8j_AN] [4v8j_B8] [4v8j_AU] [4v8j_DR] [4v8j_DT] [4v8j_DQ] [4v8j_AO] [4v8j_B4] [4v8j_CY] [4v8j_D0] [4v8j_AY] [4v8j_CN] [4v8j_AD] [4v8j_B3] [4v8j_D2] [4v8j_CC] [4v8j_DI] [4v8j_AR] [4v8j_DP] [4v8j_BH] [4v8j_CV] [4v8j_AG] [4v8j_CJ] [4v8j_AC] [4v8j_DO] [4v8j_AL] [4v8j_CR] [4v8j_CO] [4v8j_D1] [4v8j_AW] [4v8j_AK] [4v8j_DZ] [4v8j_CM] [4v8j_D9] [4v8j_BI] [4v8j_DS] [4v8j_CF] [4v8j_DV] [4v8j_CU] [4v8j_BB] [4v8j_AB] [4v8j_BC] [4v8j_AI] [4v8j_AX] [4v8j_AQ] [4v8j_AT] [4v8j_AE] [4v8j_CB] [4v8j_BW] [4v8j_AP] [4v8j_DH] [4v8j_CH] [4v8j_DC] [4v8j_CP] [4v8j_BX] [4v8j_CD] [4v8j_DX] [4v8j_DA] [4v8j_CT] [4v8j_BP] [4v8j_AS] [4v8j_AH] [4v8j_BY] [4v8j_CL] [4v8j_BV] [4v8j_BF] [4v8j_BA] [4v8j_DU] [4v8j_CX] [4v8j_DY] [4v8j_D3] [4v8j_DF] [4v8j] [4v8j_BQ] [4v8j_B6] [4v8j_BU] [4v8j_B2] [4v8j_CQ] [4v8j_BT]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4V8J: [KH] [KOW] [Ribosomal_L14] [Ribosomal_L2] [Ribosomal_L2_C] [Ribosomal_S10] [Ribosomal_S15] [Ribosomal_S4] [S4 ] by SMART
  • Other resources with information on 4V8J
  • Community annotation for 4V8J at PDBWiki (http://pdbwiki.org)

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