3HKZ

The X-ray crystal structure of RNA polymerase from Archaea

Structural Biology Knowledgebase: 3HKZ SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.4 Å
  • R-Value Free: 0.341
  • R-Value Work: 0.265

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3HKZ

Classification: TRANSFERASE

Total Structure Weight: 811628.28

Macromolecule Entities
Molecule Chains Length Organism Details
DNA-directed RNA polymerase subunit A' A, I 880 Sulfolobus solfataricus EC#: 2.7.7.6 IUBMB
Gene Name(s): rpoA1 SSO0225
DNA-directed RNA polymerase subunit A'' C, M 395 Sulfolobus solfataricus EC#: 2.7.7.6 IUBMB
Gene Name(s): rpoA2 SSO0223
DNA-directed RNA polymerase subunit B B, J 1124 Sulfolobus solfataricus EC#: 2.7.7.6 IUBMB
Gene Name(s): rpoB1 SSO0227
DNA-directed RNA polymerase subunit D D, O 265 Sulfolobus solfataricus EC#: 2.7.7.6 IUBMB
Gene Name(s): rpoD SSO0071 C04_051
DNA-directed RNA polymerase, subunit E' (RpoE1) E, Q 180 Sulfolobus solfataricus EC#: 2.7.7.6 IUBMB
Gene Name(s): rpoE1 SSO0415
DNA-directed RNA polymerase, subunit F (RpoF) F, R 113 Sulfolobus solfataricus EC#: 2.7.7.6 IUBMB
Gene Name(s): ORF-c20_042 SULA_1833 SULB_1834 SULC_1832
DNA-directed RNA polymerase, subunit G (RpoG) G, S 132 Sulfolobus solfataricus EC#: 2.7.7.6 IUBMB
Gene Name(s): rpoG SSO0277
DNA-directed RNA polymerase subunit H H, T 84 Sulfolobus solfataricus EC#: 2.7.7.6 IUBMB
Gene Name(s): rpoH SSO5468
DNA-directed RNA polymerase subunit K K, U 95 Sulfolobus solfataricus EC#: 2.7.7.6 IUBMB
Gene Name(s): rpoK SSO6768
DNA-directed RNA polymerase subunit L L, V 92 Sulfolobus solfataricus EC#: 2.7.7.6 IUBMB
Gene Name(s): rpoL SSO5577
DNA-directed RNA polymerase subunit N N, W 66 Sulfolobus solfataricus EC#: 2.7.7.6 IUBMB
Gene Name(s): rpoN SSO5140
DNA-directed RNA polymerase subunit P P, X 48 Sulfolobus solfataricus EC#: 2.7.7.6 IUBMB
Gene Name(s): rpoP SSO5865
DNA-directed RNA polymerase subunit 13 Y, Z 104 Sulfolobus solfataricus Gene Name(s): SSO0396

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

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

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

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.4 Å
  • R-Value Free: 0.341
  • R-Value Work: 0.265
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 125.82 α = 90.00
b = 201.24 β = 100.92
c = 196.05 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-05-26
  • Released Date: 2009-06-09
  • Deposition author(s): Murakami, K.S.

Revision History

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