5IY9 Human holo-PIC in the initial transcribing state (no IIS) 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 6.30
ligand MG, ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
0


1


2
  • ATPase activator activity


    • 3


    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


    • V


    W


    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] (1075 Kb) [Save to disk]
  • Biological Unit Coordinates (5iy9.pdb1.gz) 1065 Kb
  • LPC: Ligand-Protein Contacts for 5IY9
  • CSU: Contacts of Structural Units for 5IY9
  • Retrieve 5IY9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5IY9 from S2C, [Save to disk]
    • View 5IY9 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 5IY9
  • 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 5iy9 from FSSP and Dali (Families of Structurally Similar Proteins)
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5iy9] [5iy9_K] [5iy9_R] [5iy9_L] [5iy9_0] [5iy9_S] [5iy9_A] [5iy9_J] [5iy9_W] [5iy9_Z] [5iy9_O] [5iy9_G] [5iy9_H] [5iy9_2] [5iy9_P] [5iy9_3] [5iy9_1] [5iy9_C] [5iy9_D] [5iy9_X] [5iy9_B] [5iy9_N] [5iy9_Y] [5iy9_F] [5iy9_Q] [5iy9_M] [5iy9_V] [5iy9_E] [5iy9_I] [5iy9_T]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5IY9: [C1_4] [CYCLIN] [DEXDc] [DEXDc2] [HELICc] [HELICc2] [RNA_pol_Rpb6] [RPOL4c] [RPOL8c] [RPOL9] [RPOLA_N] [RPOLCX] [RPOLD] [S1] [TFIIA] [TFIIE] [Tbf5] [VWA] [ZnF_C2C2 ] by SMART
    • Other resources with information on 5IY9
  • Community annotation for 5IY9 at PDBWiki (http://pdbwiki.org)

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