1WCM

COMPLETE 12-SUBUNIT RNA POLYMERASE II AT 3.8 ANG

Structural Biology Knowledgebase: 1WCM SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.8 Å
  • R-Value Free: 0.285
  • R-Value Work: 0.257

Literature

Macromolecules
Sequence Display for 1WCM

Classification: TRANSCRIPTION

Total Structure Weight: 509591.34

Macromolecule Entities
Molecule Chains Length Organism Details
DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT A 1733 Saccharomyces cerevisiae EC#: 2.7.7.6 IUBMB
Gene Name(s): RPO21 RPB1 RPB220 SUA8 YDL140C D2150
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-DIRECTED RNA POLYMERASE II SECOND LARGEST SUBUNIT B 1224 Saccharomyces cerevisiae EC#: 2.7.7.6 IUBMB
Gene Name(s): RPB2 RPB150 RPO22 YOR151C
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-DIRECTED RNA POLYMERASE II 45 KDA POLYPEPTIDE C 318 Saccharomyces cerevisiae EC#: 2.7.7.6 IUBMB
Gene Name(s): RPB3 YIL021W
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-DIRECTED RNA POLYMERASE II 32 KDA POLYPEPTIDE D 177 Saccharomyces cerevisiae EC#: 2.7.7.6 IUBMB
Details: NUMBERING OF RESIUDES D10-D24 IS ARBITRARY
Gene Name(s): RPB4 YJL140W J0654
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-DIRECTED RNA POLYMERASES I, II, AND III 27 KDA POLYPEPTIDE E 215 Saccharomyces cerevisiae EC#: 2.7.7.6 IUBMB
Gene Name(s): RPB5 RPA7 RPC9 YBR154C YBR1204
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-DIRECTED RNA POLYMERASES I, II, AND III 23 KDA POLYPEPTIDE F 155 Saccharomyces cerevisiae EC#: 4.2.1.99 IUBMB
Gene Name(s): RPO26 RPB6 YPR187W P9677.8
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-DIRECTED RNA POLYMERASE II 19 KD POLYPEPTIDE G 171 Saccharomyces cerevisiae EC#: 2.7.7.6 IUBMB
Gene Name(s): RPB7 YDR404C D9509.22
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-DIRECTED RNA POLYMERASES I, II, AND III 14.5 KDA POLYPEPTIDE H 146 Saccharomyces cerevisiae EC#: 2.7.7.6 IUBMB
Gene Name(s): RPB8 YOR224C YOR50-14
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-DIRECTED RNA POLYMERASE II 14.2 KDA POLYPEPTIDE I 122 Saccharomyces cerevisiae EC#: 2.7.7.6 IUBMB
Gene Name(s): RPB9 YGL070C
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-DIRECTED RNA POLYMERASES I, II AND III 8.3 KDA POLYPEPTIDE J 70 Saccharomyces cerevisiae EC#: 2.7.7.6 IUBMB
Gene Name(s): RPB10 YOR210W
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-DIRECTED RNA POLYMERASE II 13.6 KDA POLYPEPTIDE K 120 Saccharomyces cerevisiae EC#: 2.7.7.6 IUBMB
Gene Name(s): RPB11 YOL005C
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-DIRECTED RNA POLYMERASES I, II, AND III 7.7 KDA POLYPEPTIDE L 70 Saccharomyces cerevisiae EC#: 2.7.7.6 IUBMB
Gene Name(s): RPC10 RPB12 YHR143W-A YHR143BW
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
ZN
Query on ZN

A, B, C, I, J, L ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.8 Å
  • R-Value Free: 0.285
  • R-Value Work: 0.257
  • Space Group: C 2 2 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 222.72 α = 90.00
b = 395.14 β = 90.00
c = 284.30 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2004-11-17
  • Released Date: 2004-12-14
  • Deposition author(s): Armache, K.-J., Mitterweger, S., Meinhart, A., Cramer, P.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4