1JDR

Crystal Structure of a Proximal Domain Potassium Binding Variant of Cytochrome c Peroxidase

Structural Biology Knowledgebase: 1JDR SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.234
  • R-Value Work: 0.197

Literature

Macromolecules
Sequence Display for 1JDR

Classification: OXIDOREDUCTASE

Total Structure Weight: 34316.20

Macromolecule Entities
Molecule Chains Length Organism Details
Cytochrome c Peroxidase A 294 Saccharomyces cerevisiae EC#: 1.11.1.5 IUBMB
Mutation: A176T, G192T, A194N, T199D, E201S
Gene Name(s): CCP1 CCP CPO Gene View YKR066C
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A PROTOPORPHYRIN IX CONTAINING FE
HEME (Synonym)
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
K
Query on K

A POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.234
  • R-Value Work: 0.197
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 106.72 α = 90.00
b = 75.53 β = 90.00
c = 51.26 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-06-14
  • Released Date: 2001-06-27
  • Deposition author(s): Bonagura, C.A., Sundaramoorthy, M., Bhaskar, B., Poulos, T.L.

Revision History

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