4W2F Ribosome Antibiotic date 4-0 20, 1999
authors Y.S.Polikanov, I.A.Osterman, T.Szal, V.N.Tashlitsky, M.V.Serebryakova, P.Kusochek, D.Bulkley, I.A.Malanicheva, T.A.Efimenko, O.V.Efremenkova, A.L.Konevega, K.J.Shaw, A.A. M.V.Rodnina, O.A.Dontsova, A.S.Mankin, T.A.Steitz, P.V.Serg
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
210.060 448.570 623.950 90.00 90.00 90.00
method X-Ray Diffractionresolution
note 4W2F supersedes 4RB5, 4RB6, 4RB7, 4RB8
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


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 referenceAmicoumacin a inhibits translation by stabilizing mRNA interaction with the ribosome., Polikanov YS, Osterman IA, Szal T, Tashlitsky VN, Serebryakova MV, Kusochek P, Bulkley D, Malanicheva IA, Efimenko TA, Efremenkova OV, Konevega AL, Shaw KJ, Bogdanov AA, Rodnina MV, Dontsova OA, Mankin AS, Steitz TA, Sergiev PV, Mol Cell. 2014 Nov 20;56(4):531-40. doi: 10.1016/j.molcel.2014.09.020. Epub 2014 , Oct 9. PMID:25306919
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1113 Kb) [Save to disk]
  • CSU: Contacts of Structural Units for 4W2F
  • Structure Factors (24999 Kb)
  • Retrieve 4W2F in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4W2F from S2C, [Save to disk]
  • View 4W2F 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 4W2F
  • 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 4w2f from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4w2f_BU] [4w2f_BS] [4w2f_DW] [4w2f_AT] [4w2f_CG] [4w2f_DA] [4w2f_CA] [4w2f_AL] [4w2f_AQ] [4w2f_DS] [4w2f_AP] [4w2f_AH] [4w2f_D4] [4w2f_DR] [4w2f_BD] [4w2f_DU] [4w2f_DX] [4w2f_BR] [4w2f_CR] [4w2f_DN] [4w2f_CQ] [4w2f_AA] [4w2f_BQ] [4w2f_CS] [4w2f_D7] [4w2f_DB] [4w2f_AB] [4w2f_DE] [4w2f_B0] [4w2f] [4w2f_DH] [4w2f_BZ] [4w2f_DV] [4w2f_AS] [4w2f_AF] [4w2f_CE] [4w2f_AD] [4w2f_BH] [4w2f_AK] [4w2f_BA] [4w2f_B6] [4w2f_DO] [4w2f_AY] [4w2f_DY] [4w2f_D0] [4w2f_AO] [4w2f_AI] [4w2f_CH] [4w2f_BE] [4w2f_BI] [4w2f_BN] [4w2f_CO] [4w2f_AX] [4w2f_B2] [4w2f_AE] [4w2f_D8] [4w2f_AU] [4w2f_D5] [4w2f_AJ] [4w2f_B7] [4w2f_DQ] [4w2f_CI] [4w2f_DD] [4w2f_CJ] [4w2f_BB] [4w2f_B5] [4w2f_B3] [4w2f_CB] [4w2f_B1] [4w2f_BX] [4w2f_CL] [4w2f_AN] [4w2f_CX] [4w2f_DF] [4w2f_CW] [4w2f_BY] [4w2f_BG] [4w2f_AM] [4w2f_AR] [4w2f_BP] [4w2f_DT] [4w2f_D9] [4w2f_BV] [4w2f_DI] [4w2f_AV] [4w2f_BO] [4w2f_B4] [4w2f_CV] [4w2f_CU] [4w2f_AC] [4w2f_BF] [4w2f_D1] [4w2f_BW] [4w2f_D3] [4w2f_CP] [4w2f_D2] [4w2f_DP] [4w2f_CK] [4w2f_D6] [4w2f_B8] [4w2f_CM] [4w2f_BT] [4w2f_AW] [4w2f_CC] [4w2f_CF] [4w2f_CY] [4w2f_CD] [4w2f_DZ] [4w2f_CN] [4w2f_CT] [4w2f_AG] [4w2f_B9] [4w2f_DG]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4W2F: [KH] [KOW] [Ribosomal_L14] [Ribosomal_L2] [Ribosomal_L2_C] [Ribosomal_S10] [Ribosomal_S15] [Ribosomal_S4] [S4 ] by SMART
  • Other resources with information on 4W2F
  • Community annotation for 4W2F at PDBWiki (http://pdbwiki.org)

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