3H0G Transcription date Apr 09, 2009
title Rna Polymerase II From Schizosaccharomyces Pombe
authors H.Spahr, G.Calero, D.A.Bushnell, R.D.Kornberg
compound source
Molecule: Dna-Directed Rna Polymerase II Subunit Rpb1
Chain: A, M
Synonym: Rna Polymerase II Subunit B1, Rna Polymerase II Su Dna-Directed Rna Polymerase III Largest Subunit;
Ec: 2.7.7.6
Organism_scientific: Schizosaccharomyces Pombe
Organism_taxid: 284812
Strain: 972h-

Molecule: Dna-Directed Rna Polymerase II Subunit Rpb2
Chain: B, N
Synonym: Rna Polymerase II Subunit B2, Rna Polymerase II Su Dna-Directed Rna Polymerase II 138 Kda Polypeptide;
Ec: 2.7.7.6

Organism_scientific: Schizosaccharomyces Pombe
Organism_taxid: 284812
Strain: 972h-

Molecule: Dna-Directed Rna Polymerase II Subunit Rpb3
Chain: C, O
Synonym: Rna Polymerase II Subunit B3, Rna Polymerase II Su Dna-Directed Rna Polymerase II 33 Kda Polypeptide;

Organism_scientific: Schizosaccharomyces Pombe
Organism_taxid: 284812
Strain: 972h-

Molecule: Dna-Directed Rna Polymerase II Subunit Rpb4
Chain: D, P
Synonym: Rna Polymerase II Subunit B4

Organism_scientific: Schizosaccharomyces Pombe
Organism_taxid: 284812
Strain: 972h-

Molecule: Dna-Directed Rna Polymerases I, II, And III Subun
Chain: E, Q
Synonym: Rna Polymerases I, II, And III Subunit Abc1, Rpc24

Organism_scientific: Schizosaccharomyces Pombe
Organism_taxid: 284812
Strain: 972h-

Molecule: Dna-Directed Rna Polymerases I, II, And III Subun
Chain: F, R
Synonym: Rna Polymerases I, II, And III Subunit Abc2, Dna-D Rna Polymerases I, II, And III 15 Kda Polypeptide, Rpc16;

Organism_scientific: Schizosaccharomyces Pombe
Organism_taxid: 284812
Strain: 972h-

Molecule: Dna-Directed Rna Polymerase II Subunit Rpb7
Chain: G, S
Synonym: Rna Polymerase II Subunit B7

Organism_scientific: Schizosaccharomyces Pombe
Organism_taxid: 284812
Strain: 972h-

Molecule: Dna-Directed Rna Polymerases I, II, And III Subun
Chain: H, T
Synonym: Rna Polymerases I, II, And III Subunit Abc3, Dna-D Rna Polymerases I, II, And III 14.5 Kda Polypeptide, Rpc14;

Organism_scientific: Schizosaccharomyces Pombe
Organism_taxid: 284812
Strain: 972h-

Molecule: Dna-Directed Rna Polymerase II Subunit Rpb9
Chain: I, U
Synonym: Rna Polymerase II Subunit B9, Dna-Directed Rna Pol Subunit 9, Dna-Directed Rna Polymerase II 13.2 Kda Polypept

Organism_scientific: Schizosaccharomyces Pombe
Organism_taxid: 284812
Strain: 972h-

Molecule: Dna-Directed Rna Polymerases I, II, And III Subun
Chain: J, V
Synonym: Rna Polymerases I, II, And III Subunit Abc5, Dna-D Rna Polymerases I, II, And III 8.3 Kda Polypeptide, Abc10-B

Organism_scientific: Schizosaccharomyces Pombe
Organism_taxid: 284812
Strain: 972h-

Molecule: Dna-Directed Rna Polymerase II Subunit Rpb11
Chain: K, W
Synonym: Rna Polymerase II Subunit B11, Dna-Directed Rna Po II 14.1 Kda Polypeptide;

Organism_scientific: Schizosaccharomyces Pombe
Organism_taxid: 284812
Strain: 972h-

Molecule: Dna-Directed Rna Polymerases I, II, And III Subun
Chain: L, X
Synonym: Rna Polymerases I, II, And III Subunit Abc4, Abc10

Organism_scientific: Schizosaccharomyces Pombe
Organism_taxid: 284812
Strain: 972h-
symmetry Space Group: P 21 21 21
R_factor 0.297 R_Free 0.321
crystal
cell
length a length b length c angle alpha angle beta angle gamma
163.034 202.684 391.258 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.65 Å
ligand MG, ZN enzyme Transferase E.C.2.7.7.6 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
C, O

  • DNA-directed RNA polymerase ...
  • E, Q


    F, R

  • DNA-directed RNA polymerase ...
  • DNA-directed RNA polymerase ...
  • DNA-directed RNA polymerase ...
  • I, U

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


  • L, X


    M, A

  • DNA-directed RNA polymerase ...
  • N, B


    P, D


    S, G
  • DNA-directed 5'-3' RNA polym...


  • T, H


    V, J


    Primary referenceSchizosacharomyces pombe RNA polymerase II at 3.6-A resolution., Spahr H, Calero G, Bushnell DA, Kornberg RD, Proc Natl Acad Sci U S A. 2009 Jun 9;106(23):9185-90. Epub 2009 May 20. PMID:19458260
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (2756 Kb) [Save to disk]
  • Biological Unit Coordinates (3h0g.pdb1.gz) 1376 Kb
  • Biological Unit Coordinates (3h0g.pdb2.gz) 1388 Kb
  • LPC: Ligand-Protein Contacts for 3H0G
  • CSU: Contacts of Structural Units for 3H0G
  • Structure Factors (7865 Kb)
  • Retrieve 3H0G in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3H0G from S2C, [Save to disk]
  • Re-refined 3h0g structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3H0G 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 3H0G
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3H0G, from MSDmotif at EBI
  • Fold representative 3h0g from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3h0g_R] [3h0g_J] [3h0g_W] [3h0g_S] [3h0g_E] [3h0g_Q] [3h0g_B] [3h0g_L] [3h0g] [3h0g_I] [3h0g_G] [3h0g_U] [3h0g_P] [3h0g_F] [3h0g_H] [3h0g_O] [3h0g_M] [3h0g_T] [3h0g_D] [3h0g_K] [3h0g_V] [3h0g_N] [3h0g_A] [3h0g_X] [3h0g_C]
  • SWISS-PROT database: [Q09191] [P36595] [Q92399] [P48011] [O13877] [P87123] [P36594] [Q02061] [P37382] [O74825] [O14459] [O74635]
  • Domain organization of [RPAB1_SCHPO] [RPAB2_SCHPO] [RPAB3_SCHPO] [RPAB4_SCHPO] [RPAB5_SCHPO] [RPB11_SCHPO] [RPB1_SCHPO] [RPB2_SCHPO] [RPB3_SCHPO] [RPB4_SCHPO] [RPB7_SCHPO] [RPB9_SCHPO] by SWISSPFAM
  • Domains found in 3H0G: [RNA_pol_Rpb6] [RPOL4c] [RPOL8c] [RPOL9] [RPOLA_N] [RPOLCX] [RPOLD] [S1] [ZnF_C2C2 ] by SMART
  • Other resources with information on 3H0G
  • Community annotation for 3H0G 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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