1I3Q RNA POLYMERASE II CRYSTAL FORM I AT 3.1 A RESOLUTION date
authors Cramer, P., Bushnell, D.A., Kornberg, R.D.
compound source
symmetry
R_factor
R_Free 0.2830000
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 3.10
ligand MG, ZN enzyme
note 1I3Q supersedes 1EN0
Gene
Ontology
ChainFunctionProcessComponent
A
  • RNA-directed 5'-3' RNA polym...


  • B
  • RNA-directed 5'-3' RNA polym...


  • C
  • RNA-directed 5'-3' RNA polym...


  • E
  • RNA-directed 5'-3' RNA polym...


  • F
  • RNA-directed 5'-3' RNA polym...


  • H
  • RNA-directed 5'-3' RNA polym...


  • I
  • RNA-directed 5'-3' RNA polym...


  • J
  • RNA-directed 5'-3' RNA polym...

  • DNA-directed RNA polymerase ...
  • K
  • RNA-directed 5'-3' RNA polym...


  • L
  • RNA-directed 5'-3' RNA polym...


  • Primary referenceStructural basis of transcription: RNA polymerase II at 2.8 angstrom resolution., Cramer P, Bushnell DA, Kornberg RD, Science. 2001 Jun 8;292(5523):1863-76. Epub 2001 Apr 19. PMID:11313498
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (585 Kb) [Save to disk]
  • Biological Unit Coordinates (1i3q.pdb1.gz) 570 Kb
  • LPC: Ligand-Protein Contacts for 1I3Q
  • CSU: Contacts of Structural Units for 1I3Q
  • Likely Quarternary Molecular Structure file(s) for 1I3Q
  • Retrieve 1I3Q in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1I3Q from S2C, [Save to disk]
  • View 1I3Q 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 1I3Q
  • 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
  • 3D motif for 1I3Q, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1i3qa_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1i3qb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1i3qc1, region C:3-41,C:173-268 [Jmol] [rasmolscript] [script source]
        - Domain d1i3qc2, region C:42-172 [Jmol] [rasmolscript] [script source]
        - Domain d1i3qe1, region E:1-143 [Jmol] [rasmolscript] [script source]
        - Domain d1i3qe2, region E:144-215 [Jmol] [rasmolscript] [script source]
        - Domain d1i3qf_, region F [Jmol] [rasmolscript] [script source]
        - Domain d1i3qh_, region H [Jmol] [rasmolscript] [script source]
        - Domain d1i3qi1, region I:1-49 [Jmol] [rasmolscript] [script source]
        - Domain d1i3qi2, region I:50-122 [Jmol] [rasmolscript] [script source]
        - Domain d1i3qj_, region J [Jmol] [rasmolscript] [script source]
        - Domain d1i3qk_, region K [Jmol] [rasmolscript] [script source]
        - Domain d1i3ql_, region L [Jmol] [rasmolscript] [script source]
  • Fold representative 1i3q from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1i3q_H] [1i3q_B] [1i3q_K] [1i3q_L] [1i3q_A] [1i3q_J] [1i3q_I] [1i3q] [1i3q_E] [1i3q_C] [1i3q_F]
  • SWISS-PROT database: [P20434] [P20435] [P20436] [P40422] [P22139] [P38902] [P04050] [P08518] [P16370] [P27999]
  • Domain organization of [RPAB1_YEAST] [RPAB2_YEAST] [RPAB3_YEAST] [RPAB4_YEAST] [RPAB5_YEAST] [RPB11_YEAST] [RPB1_YEAST] [RPB2_YEAST] [RPB3_YEAST] [RPB9_YEAST] by SWISSPFAM
  • Domains found in 1I3Q: [RNA_pol_Rpb6] [RPOL8c] [RPOL9] [RPOLA_N] [RPOLCX] [RPOLD] [ZnF_C2C2 ] by SMART
  • Other resources with information on 1I3Q
  • Community annotation for 1I3Q at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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