4V8M High-resolution cryo-electron microscopy structure of the Trypanosoma brucei ribosome date
authors Hashem, Y., Georges, A.des., Fu, J., Buss, S.N., Jossinet, F., Jobe, A., Zhang, Q., Liao, H.Y., Grassucci, R.A., Bajaj, C., Westhof, E., Madison-Antenucci, S., Frank, J.
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 5.57
note 4V8M supersedes 3ZEQ, 3ZEX, 3ZEY, 3ZF7
Gene
Ontology
ChainFunctionProcessComponent
A0


A1


A2


A3


A4


A5


A6


A7


A8


A9


AC


AD


AE


AF


AG


AH


AI


AJ


AK


AL


AM


AO


AP


AQ


AR


AS


AT


AU


AV


AW


AX


AY


AZ


BI


BJ


BK


BL


BM


BN


BO


BP


BQ


BR


BS


BT


BU


BV


BW


BX


BY


BZ


Ba


Bb


Bc


Bd


Be


Bf


Bg


Bh


Bi


Bj


Bk


Bl


Bm


Bn


Bo


Bp


Bq


Br


Bs


Bt


Bu


Bv


Bw


Bx


By


Primary referenceHigh-resolution cryo-electron microscopy structure of the Trypanosoma brucei ribosome., Hashem Y, des Georges A, Fu J, Buss SN, Jossinet F, Jobe A, Zhang Q, Liao HY, Grassucci RA, Bajaj C, Westhof E, Madison-Antenucci S, Frank J, Nature. 2013 Feb 21;494(7437):385-9. doi: 10.1038/nature11872. Epub 2013 Feb 10. PMID:23395961
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1312 Kb) [Save to disk]
  • CSU: Contacts of Structural Units for 4V8M
  • Retrieve 4V8M in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4V8M from S2C, [Save to disk]
  • View 4V8M 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 4V8M
  • 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: [4v8m_Bt] [4v8m_Bc] [4v8m_By] [4v8m_BQ] [4v8m_BB] [4v8m_BI] [4v8m_Bs] [4v8m_BN] [4v8m_AO] [4v8m_BT] [4v8m_A7] [4v8m_BE] [4v8m_AE] [4v8m_Bb] [4v8m_Bh] [4v8m_A3] [4v8m_AX] [4v8m_Bj] [4v8m_BU] [4v8m_BD] [4v8m_BG] [4v8m_Ba] [4v8m_Bv] [4v8m_Bd] [4v8m_AP] [4v8m_A6] [4v8m_AB] [4v8m_BV] [4v8m_A5] [4v8m_AK] [4v8m_A9] [4v8m_Bx] [4v8m_Bp] [4v8m_Bl] [4v8m_BO] [4v8m] [4v8m_Bq] [4v8m_BK] [4v8m_BJ] [4v8m_BX] [4v8m_AV] [4v8m_AT] [4v8m_BW] [4v8m_BH] [4v8m_Bg] [4v8m_Bf] [4v8m_A4] [4v8m_BA] [4v8m_AG] [4v8m_BZ] [4v8m_Bi] [4v8m_BL] [4v8m_Bk] [4v8m_BC] [4v8m_AU] [4v8m_A1] [4v8m_Bw] [4v8m_AF] [4v8m_BS] [4v8m_AS] [4v8m_AC] [4v8m_AA] [4v8m_AR] [4v8m_Bo] [4v8m_AL] [4v8m_A2] [4v8m_AH] [4v8m_A0] [4v8m_BF] [4v8m_BR] [4v8m_AQ] [4v8m_AZ] [4v8m_AI] [4v8m_BY] [4v8m_AM] [4v8m_Be] [4v8m_A8] [4v8m_BM] [4v8m_Br] [4v8m_Bu] [4v8m_AJ] [4v8m_BP] [4v8m_AY] [4v8m_Bm] [4v8m_Bn] [4v8m_AD] [4v8m_AW]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4V8M: [KOW] [RL11] [Ribosomal_L14] [Ribosomal_L15e] [Ribosomal_L19e] [Ribosomal_L2] [Ribosomal_L2_C] [Ribosomal_L31e] [Ribosomal_L32e] [Ribosomal_L40e] [Ribosomal_S10] [Ribosomal_S13_N] [Ribosomal_S15] [Ribosomal_S19e] [Ribosomal_S27] [Ribosomal_S3Ae] [Ribosomal_S4] [Ribosomal_S6e] [S4] [UBQ] [WD40 ] by SMART
  • Other resources with information on 4V8M
  • Community annotation for 4V8M at PDBWiki (http://pdbwiki.org)

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science