3J0K

Orientation of RNA polymerase II within the human VP16-Mediator-pol II-TFIIF assembly

Structural Biology Knowledgebase: 3J0K SBKB.org


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 36.0 Å
  • Aggregation State: Particle
  • Specimen Type: Vitreous Ice (cryo Em)
  • Reconstruction Method: Single Particle

Currently 3J0K does not have a wwPDB validation report.


Literature

Macromolecules
Sequence Display for 3J0K

Classification: TRANSFERASE / TRANSCRIPTION

Total Structure Weight: 470207.63

Macromolecule Entities
Molecule Chains Length Organism Details
DNA-directed RNA polymerase II largest subunit A 1455 Homo sapiens EC#: 2.7.7.6 IUBMB
Gene Name(s): RPO21 RPB1 RPB220 SUA8 YDL140C D2150
DNA-directed RNA polymerase II 140 kDa polypeptide B 1224 Homo sapiens EC#: 2.7.7.6 IUBMB
Gene Name(s): RPB2 RPB150 RPO22 YOR151C
DNA-directed RNA polymerase II 45 kDa polypeptide C 268 Homo sapiens EC#: 2.7.7.6 IUBMB
Gene Name(s): RPB3 YIL021W
DNA-directed RNA polymerase II 32 kDa polypeptide D 221 Homo sapiens EC#: 2.7.7.6 IUBMB
Gene Name(s): RPB4 YJL140W J0654
DNA-directed RNA polymerases I, II, and III 27 kDa polypeptide E 215 Homo sapiens EC#: 2.7.7.6 IUBMB
Gene Name(s): RPB5 RPA7 RPC9 YBR154C YBR1204
DNA-directed RNA polymerases I, II, and III 23 kDa polypeptide F 84 Homo sapiens EC#: 4.2.1.99 IUBMB
Gene Name(s): RPO26 RPB6 YPR187W P9677.8
DNA-directed RNA polymerase II 19 kDa polypeptide G 171 Homo sapiens EC#: 2.7.7.6 IUBMB
Gene Name(s): RPB7 YDR404C D9509.22
DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide H 146 Homo sapiens EC#: 2.7.7.6 IUBMB
Gene Name(s): RPB8 YOR224C YOR50-14
DNA-directed RNA polymerase II subunit 9 I 122 Homo sapiens EC#: 2.7.7.6 IUBMB
Gene Name(s): RPB9 YGL070C
DNA-directed RNA polymerases I/II/III subunit 10 J 70 Homo sapiens EC#: 2.7.7.6 IUBMB
Gene Name(s): RPB10 YOR210W
DNA-directed RNA polymerase II 13.6 kDa polypeptide K 120 Homo sapiens EC#: 2.7.7.6 IUBMB
Gene Name(s): RPB11 YOL005C
DNA-directed RNA polymerases I, II, and III 7.7 kDa polypeptide L 46 Homo sapiens EC#: 2.7.7.6 IUBMB

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
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

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

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 36.0 Å
  • Aggregation State: Particle
  • Specimen Type: Vitreous Ice (cryo Em)
  • Reconstruction Method: Single Particle

Structure Validation

Currently 3J0K does not have a validation report.



Entry History

Deposition Data

  • Deposited Date: 2011-10-04
  • Released Date: 2011-10-19
  • Deposition author(s): Bernecky, C., Grob, P., Ebmeier, C.C., Nogales, E., Taatjes, D.J.

Revision History

  • 2011-10-26
    Type: Entry authorship | Details: Expanded entry author list
  • 2011-10-26
    Type: Entry title | Details: Modified entry title