1BDF Nucleotidyltransferase date May 08, 1998
title Structure Of Escherichia Coli Rna Polymerase Alpha Subunit N Domain
authors G.Zhang, S.A.Darst
compound source
Molecule: Rna Polymerase Alpha Subunit
Chain: A, B, C, D
Fragment: N-Terminal Domain Residues 1-235
Ec: 2.7.7.6
Engineered: Yes
Mutation: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562
Cell_line: Bl-21
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_cell_line: Bl-21
Expression_system_plasmid: Pet15-B
symmetry Space Group: H 3 2
R_factor 0.225 R_Free 0.308
crystal
cell
length a length b length c angle alpha angle beta angle gamma
117.200 117.200 350.400 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.50 Å
ligand
enzyme Transferase E.C.2.7.7.6 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceStructure of the Escherichia coli RNA polymerase alpha subunit amino-terminal domain., Zhang G, Darst SA, Science 1998 Jul 10;281(5374):262-6. PMID:9657722
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (148 Kb) [Save to disk]
  • Biological Unit Coordinates (1bdf.pdb1.gz) 142 Kb
  • CSU: Contacts of Structural Units for 1BDF
  • Likely Quarternary Molecular Structure file(s) for 1BDF
  • Structure Factors (233 Kb)
  • Retrieve 1BDF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1BDF from S2C, [Save to disk]
  • Re-refined 1bdf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1BDF 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 1BDF
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1BDF, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1bdfa1, region A:2-52,A:179-232 [Jmol] [rasmolscript] [script source]
        - Domain d1bdfa2, region A:53-178 [Jmol] [rasmolscript] [script source]
        - Domain d1bdfb1, region B:1-52,B:179-235 [Jmol] [rasmolscript] [script source]
        - Domain d1bdfb2, region B:53-178 [Jmol] [rasmolscript] [script source]
        - Domain d1bdfc1, region C:1-52,C:179-235 [Jmol] [rasmolscript] [script source]
        - Domain d1bdfc2, region C:53-178 [Jmol] [rasmolscript] [script source]
        - Domain d1bdfd1, region D:1-52,D:179-235 [Jmol] [rasmolscript] [script source]
        - Domain d1bdfd2, region D:53-178 [Jmol] [rasmolscript] [script source]
  • 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: [1bdf_C] [1bdf] [1bdf_A] [1bdf_B] [1bdf_D]
  • SWISS-PROT database: [P0A7Z4]
  • Domain organization of [RPOA_ECOLI] by SWISSPFAM
  • Domain found in 1BDF: [RPOLD ] by SMART
  • Other resources with information on 1BDF
  • Community annotation for 1BDF at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • 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