5IYB Human core-PIC in the open state date
authors He, Y., Yan, C., Fang, J., Inouye, C., Tjian, R., Ivanov, I., Nogales, E.
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 3.90
ligand MG, ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
A
  • RNA-directed 5'-3' RNA polym...


  • B


    C


    D


    E


    F


    G


    H


    I


    J


    K


    L


    M
  • histone acetyltransferase ac...


  • N


    O


    P

  • transcription factor TFIID c...
  • Q


    R


    S
  • phosphatase activator activi...


  • T
  • DNA helicase activity


  • U


    Primary referenceNear-atomic resolution visualization of human transcription promoter opening., He Y, Yan C, Fang J, Inouye C, Tjian R, Ivanov I, Nogales E, Nature. 2016 May 11;533(7603):359-65. doi: 10.1038/nature17970. PMID:27193682
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (829 Kb) [Save to disk]
  • Biological Unit Coordinates (5iyb.pdb1.gz) 821 Kb
  • LPC: Ligand-Protein Contacts for 5IYB
  • CSU: Contacts of Structural Units for 5IYB
  • Retrieve 5IYB in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5IYB from S2C, [Save to disk]
  • View 5IYB 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 5IYB
  • 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 5iyb from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5iyb_L] [5iyb_Y] [5iyb_M] [5iyb_F] [5iyb_U] [5iyb_X] [5iyb_O] [5iyb] [5iyb_E] [5iyb_T] [5iyb_G] [5iyb_C] [5iyb_I] [5iyb_P] [5iyb_Q] [5iyb_J] [5iyb_S] [5iyb_H] [5iyb_B] [5iyb_A] [5iyb_D] [5iyb_K] [5iyb_R] [5iyb_N]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5IYB: [CYCLIN] [RNA_pol_Rpb6] [RPOL4c] [RPOL8c] [RPOL9] [RPOLA_N] [RPOLCX] [RPOLD] [S1] [TFIIA] [TFIIE] [TFS2M] [TFS2N] [ZnF_C2C2 ] by SMART
  • Other resources with information on 5IYB
  • Community annotation for 5IYB at PDBWiki (http://pdbwiki.org)

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