1Q0K

Crystal structure of Ni-containing superoxide dismutase with Ni-ligation corresponding to the thiosulfate-reduced state

Structural Biology Knowledgebase: 1Q0K SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.238
  • R-Value Work: 0.204

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1Q0K

Classification: OXIDOREDUCTASE

Total Structure Weight: 161699.70

Macromolecule Entities
Molecule Chains Length Organism Details
Superoxide dismutase [Ni] A, B, C..., D, E, F, G, H, I, J, K, LA, B, C, D, E, F, G, H, I, J, K, L 117 Streptomyces seoulensis EC#: 1.15.1.1 IUBMB
Details: THE ASYMMETRIC UNIT CONTAINS TWO HEXAMERS
Gene Name(s): sodN

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

A, B, C, D, E, F, G, H, I, J, K, L NICKEL (II) ION
Ni
VEQPNABPJHWNSG-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
SO4
Query on SO4

A, B, C, D, E, F, G, H, I, J, K, L SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
JSmol
THJ
Query on THJ

A, B, C, D, G, H, I, L THIOSULFATE
O3 S2
DHCDFWKWKRSZHF-UHFFFAOYSA-L
Ligand Explorer
 
JSmol

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.238
  • R-Value Work: 0.204
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 111.64 α = 90.00
b = 113.65 β = 90.00
c = 129.36 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-07-16
  • Released Date: 2004-05-18
  • Deposition author(s): Wuerges, J., Lee, J.-W., Yim, Y.-I., Yim, H.-S., Kang, S.-O., Djinovic Carugo, K.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update