3PO2 Transferase Dna Rna date Nov 21, 2010
title Arrested Rna Polymerase II Elongation Complex
authors A.C.M.Cheung, P.Cramer
compound source
Molecule: Dna-Directed Rna Polymerase II Subunit Rpb1
Chain: A
Synonym: Rna Polymerase II Subunit 1, Rna Polymerase II Sub Dna-Directed Rna Polymerase III Largest Subunit, Rna Polyme Subunit B220;
Ec: 2.7.7.6
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Brewer'S Yeast,Lager Beer Yeast,Yeast
Organism_taxid: 4932

Molecule: Dna-Directed Rna Polymerase II Subunit Rpb2
Chain: B
Synonym: Rna Polymerase II Subunit 2, B150, Dna-Directed Rn Polymerase II 140 Kda Polypeptide;
Ec: 2.7.7.6

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Brewer'S Yeast,Lager Beer Yeast,Yeast
Organism_taxid: 4932

Molecule: Dna-Directed Rna Polymerase II Subunit Rpb3
Chain: C
Synonym: Rna Polymerase II Subunit 3, Rna Polymerase II Sub B44.5, Dna-Directed Rna Polymerase II 45 Kda Polypeptide;
Ec: 2.7.7.6

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Brewer'S Yeast,Lager Beer Yeast,Yeast
Organism_taxid: 4932

Molecule: Dna-Directed Rna Polymerase II Subunit Rpb4
Chain: D
Synonym: Rna Polymerase II Subunit B4, B32, Dna-Directed Rn Polymerase II 32 Kda Polypeptide;
Ec: 2.7.7.6

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Brewer'S Yeast,Lager Beer Yeast,Yeast
Organism_taxid: 4932

Molecule: Dna-Directed Rna Polymerases I, II, And III Subun
Chain: E
Synonym: Rna Polymerases I, II, And III Subunit Abc1, Abc27 Directed Rna Polymerases I, II, And III 27 Kda Polypeptide;
Ec: 2.7.7.6

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Brewer'S Yeast,Lager Beer Yeast,Yeast
Organism_taxid: 4932

Molecule: Dna-Directed Rna Polymerases I, II, And III Subun
Chain: F
Synonym: Rna Polymerases I, II, And III Subunit Abc2, Abc23 Directed Rna Polymerases I, II, And III 23 Kda Polypeptide;
Ec: 2.7.7.6

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Brewer'S Yeast,Lager Beer Yeast,Yeast
Organism_taxid: 4932

Molecule: Dna-Directed Rna Polymerase II Subunit Rpb7
Chain: G
Synonym: Rna Polymerase II Subunit B7, B16
Ec: 2.7.7.6

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Brewer'S Yeast,Lager Beer Yeast,Yeast
Organism_taxid: 4932

Molecule: Dna-Directed Rna Polymerases I, II, And III Subun
Chain: H
Synonym: Rna Polymerases I, II, And III Subunit Abc3, Abc14 Abc14.5, Dna-Directed Rna Polymerases I, II, And III 14.5 K Polypeptide;
Ec: 2.7.7.6

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Brewer'S Yeast,Lager Beer Yeast,Yeast
Organism_taxid: 4932

Molecule: Dna-Directed Rna Polymerase II Subunit Rpb9
Chain: I
Synonym: Rna Polymerase II Subunit B9, B12.6, Dna-Directed Polymerase II 14.2 Kda Polypeptide, Dna-Directed Rna Polyme Subunit 9;
Ec: 2.7.7.6

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Brewer'S Yeast,Lager Beer Yeast,Yeast
Organism_taxid: 4932

Molecule: Dna-Directed Rna Polymerases I, II, And III Subun
Chain: J
Synonym: Rna Polymerases I, II, And III Subunit Abc5, Abc10 Abc8, Dna-Directed Rna Polymerases I, II, And III 8.3 Kda Polypeptide;
Ec: 2.7.7.6

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Brewer'S Yeast,Lager Beer Yeast,Yeast
Organism_taxid: 4932

Molecule: Dna-Directed Rna Polymerase II Subunit Rpb11
Chain: K
Synonym: Rna Polymerase II Subunit B11, B13.6, Dna-Directed Polymerase II 13.6 Kda Polypeptide;
Ec: 2.7.7.6

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Brewer'S Yeast,Lager Beer Yeast,Yeast
Organism_taxid: 4932

Molecule: Dna-Directed Rna Polymerases I, II, And III Subun
Chain: L
Synonym: Rna Polymerases I, II, And III Subunit Abc4, Abc10
Ec: 2.7.7.6

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Brewer'S Yeast,Lager Beer Yeast,Yeast
Organism_taxid: 4932

Molecule: Dna Non-Template Strand
Chain: N
Engineered: Yes

Synthetic: Yes
Other_details: Chemically Synthesised

Molecule: Rna Product Strand
Chain: P
Engineered: Yes

Synthetic: Yes
Other_details: Enzymatically Synthesised

Molecule: Dna Template Strand
Chain: T
Engineered: Yes

Synthetic: Yes
Other_details: Chemically Synthesised
symmetry Space Group: C 2 2 21
R_factor 0.153 R_Free 0.178
crystal
cell
length a length b length c angle alpha angle beta angle gamma
224.570 394.550 282.140 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.30 Å
ligand ACT, BRU, EPE, MG, PEG, ZN enzyme Transferase E.C.2.7.7.6 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A
  • RNA-directed 5'-3' RNA polym...


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


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


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


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


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


  • G
  • 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 RNA polymerase II backtracking, arrest and reactivation., Cheung AC, Cramer P, Nature. 2011 Mar 10;471(7337):249-53. Epub 2011 Feb 23. PMID:21346759
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1411 Kb) [Save to disk]
  • Biological Unit Coordinates (3po2.pdb1.gz) 1394 Kb
  • LPC: Ligand-Protein Contacts for 3PO2
  • CSU: Contacts of Structural Units for 3PO2
  • Structure Factors (10485 Kb)
  • Retrieve 3PO2 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3PO2 from S2C, [Save to disk]
  • Re-refined 3po2 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3PO2 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 3PO2
  • 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 3PO2, from MSDmotif at EBI
  • Fold representative 3po2 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3po2_A] [3po2_N] [3po2] [3po2_K] [3po2_H] [3po2_C] [3po2_B] [3po2_D] [3po2_F] [3po2_T] [3po2_G] [3po2_J] [3po2_E] [3po2_P] [3po2_I] [3po2_L]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3PO2: [RNA_pol_Rpb6] [RPOL4c] [RPOL8c] [RPOL9] [RPOLA_N] [RPOLCX] [RPOLD] [S1] [ZnF_C2C2 ] by SMART
  • Other resources with information on 3PO2
  • Community annotation for 3PO2 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
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