4V84 Crystal structure of a complex containing domain 3 of CrPV IGR IRES RNA bound to the 70S ribosome. date
authors Zhu, J., Korostelev, A., Costantino, D., Noller, H.F., Kieft, J.S.
compound source
symmetry
R_factor
R_Free 0.2655
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 3.40
note 4V84 supersedes 3PYS, 3PYT, 3PYU, 3PYV
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


B1, D1


B3, D3


B4, D4


BC, DC


BE, DE


BF, DF


BL, DL


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


DD, BD


DG, BG


DH, BH


DI, BI


DJ, BJ


DK, BK


DM, BM


DP, BP


DR, BR


DU, BU


DV, BV


DZ, BZ


Primary referenceCrystal structures of complexes containing domains from two viral internal ribosome entry site (IRES) RNAs bound to the 70S ribosome., Zhu J, Korostelev A, Costantino DA, Donohue JP, Noller HF, Kieft JS, Proc Natl Acad Sci U S A. 2011 Feb 1;108(5):1839-44. Epub 2011 Jan 18. PMID:21245352
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1045 Kb) [Save to disk]
  • CSU: Contacts of Structural Units for 4V84
  • Structure Factors (6222 Kb)
  • Retrieve 4V84 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4V84 from S2C, [Save to disk]
  • View 4V84 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 4V84
  • 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: [4v84_CR] [4v84_AO] [4v84_BZ] [4v84_DQ] [4v84_D5] [4v84_AN] [4v84_BM] [4v84_AR] [4v84_AM] [4v84_DM] [4v84_BT] [4v84_BR] [4v84_BA] [4v84_AJ] [4v84_CO] [4v84_DS] [4v84_CA] [4v84_B4] [4v84_BF] [4v84_DO] [4v84_DJ] [4v84_BI] [4v84_DU] [4v84_BY] [4v84_AC] [4v84_BL] [4v84_AF] [4v84_CC] [4v84_BQ] [4v84_AP] [4v84_DD] [4v84_BP] [4v84_AE] [4v84_AI] [4v84_DB] [4v84_AH] [4v84_CV] [4v84_D2] [4v84_CK] [4v84_CT] [4v84_DY] [4v84_DT] [4v84_DE] [4v84_DH] [4v84_BE] [4v84_BC] [4v84_CB] [4v84_D3] [4v84_DL] [4v84_BD] [4v84_AT] [4v84_CU] [4v84_BK] [4v84_AK] [4v84_CG] [4v84_BU] [4v84_CM] [4v84_DR] [4v84_BB] [4v84_DX] [4v84_DK] [4v84_AQ] [4v84_BG] [4v84_DA] [4v84_BJ] [4v84_DN] [4v84_B5] [4v84_CQ] [4v84_CI] [4v84_CF] [4v84_BN] [4v84_DG] [4v84_BH] [4v84_BS] [4v84_CD] [4v84_AB] [4v84_D1] [4v84_CS] [4v84_CE] [4v84_AS] [4v84_DZ] [4v84_CJ] [4v84_AL] [4v84_AG] [4v84_BX] [4v84_CP] [4v84_BW] [4v84_AV] [4v84_DC] [4v84_DW] [4v84_DF] [4v84_DP] [4v84_DI] [4v84_B1] [4v84_CL] [4v84_B2] [4v84_BV] [4v84_DV] [4v84_B3] [4v84_D4] [4v84_CH] [4v84_AA] [4v84_CN] [4v84] [4v84_BO] [4v84_AU] [4v84_AD]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4V84: [KH] [KOW] [Ribosomal_L14] [Ribosomal_L2] [Ribosomal_L2_C] [Ribosomal_S10] [Ribosomal_S15] [Ribosomal_S4] [S4 ] by SMART
  • Other resources with information on 4V84
  • Community annotation for 4V84 at PDBWiki (http://pdbwiki.org)

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