2Y0S

Crystal structure of Sulfolobus shibatae RNA polymerase in P21 space group

Structural Biology Knowledgebase: 2Y0S SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.8 Å
  • R-Value Free: 0.354
  • R-Value Work: 0.300

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2Y0S

Classification: TRANSFERASE

Total Structure Weight: 812831.09

Macromolecule Entities
Molecule Chains Length Organism Details
DNA-DIRECTED RNA POLYMERASE A, W 880 Sulfolobus shibatae EC#: 2.7.7.6 IUBMB
Gene Name(s): rpo1N
DNA-DIRECTED RNA POLYMERASE B, R 1131 Sulfolobus shibatae EC#: 2.7.7.6 IUBMB
Gene Name(s): rpo2
DNA-DIRECTED RNA POLYMERASE SUBUNIT A'' C, Y 395 Sulfolobus shibatae EC#: 2.7.7.6 IUBMB
Gene Name(s): rpo1C rpoA2
DNA-DIRECTED RNA POLYMERASE SUBUNIT D D, S 265 Sulfolobus shibatae EC#: 2.7.7.6 IUBMB
Gene Name(s): rpo3 rpoD
RNA POLYMERASE SUBUNIT 4 E, T 180 Sulfolobus shibatae EC#: 2.7.7.6 IUBMB
Gene Name(s): rpo7
RNA POLYMERASE SUBUNIT 7 F, U 113 Sulfolobus shibatae Details: RPO4
Gene Name(s): rpo4
RNA POLYMERASE SUBUNIT 8 G, V 132 Sulfolobus shibatae Fragment: RPO8
Gene Name(s): rpo8
DNA-DIRECTED RNA POLYMERASE SUBUNIT H H, Z 84 Sulfolobus shibatae EC#: 2.7.7.6 IUBMB
Gene Name(s): rpo5 rpoH
DNA-DIRECTED RNA POLYMERASE SUBUNIT K I, K 95 Sulfolobus shibatae EC#: 2.7.7.6 IUBMB
Gene Name(s): rpo6 rpoK
RNA POLYMERASE SUBUNIT 13 J, Q 104 Sulfolobus shibatae Mutation: D40N
Gene Name(s): rpo13
DNA-DIRECTED RNA POLYMERASE SUBUNIT L L, M 92 Sulfolobus shibatae EC#: 2.7.7.6 IUBMB
Gene Name(s): rpo11 rpoL
DNA-DIRECTED RNA POLYMERASE SUBUNIT N N, O 66 Sulfolobus shibatae EC#: 2.7.7.6 IUBMB
Gene Name(s): rpo10 rpoN
RNA POLYMERASE SUBUNIT 12 P, X 48 Sulfolobus shibatae EC#: 2.7.7.6 IUBMB
Gene Name(s): rpo12 rpoP

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
F3S
Query on F3S

D, S FE3-S4 CLUSTER
Fe3 S4
FCXHZBQOKRZXKS-MZMDZPPWAW
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A, B, N, O, P, R, W, X ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.8 Å
  • R-Value Free: 0.354
  • R-Value Work: 0.300
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 129.33 α = 90.00
b = 195.91 β = 105.73
c = 212.45 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-12-07
  • Released Date: 2011-02-16
  • Deposition author(s): Wojtas, M., Peralta, B., Ondiviela, M., Mogni, M., Bell, S.D., Abrescia, N.G.A.

Revision History

  • 2012-10-03
    Type: Biological assembly | Details: REMARK 350
  • 2012-10-03
    Type: Version format compliance | Details: REMARK 4