1IW0
Crystal structure of a heme oxygenase (HmuO) from Corynebacterium diphtheriae complexed with heme in the ferric state
- PDB DOI: https://doi.org/10.2210/pdb1IW0/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Corynebacterium diphtheriae
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No 
- Deposited: 2002-04-04 Released: 2003-04-08 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.40 Å
- R-Value Free: 0.192 
- R-Value Work: 0.165 
- R-Value Observed: 0.168 
This is version 2.1 of the entry. See complete history. 
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Heme oxygenase | 215 | Corynebacterium diphtheriae | Mutation(s): 0  EC: 1.14.99.3 | ||
UniProt | |||||
Find proteins for P71119 (Corynebacterium diphtheriae (strain ATCC 700971 / NCTC 13129 / Biotype gravis)) Explore P71119  Go to UniProtKB:  P71119 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P71119 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Small Molecules
Ligands 2 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
HEM Query on HEM | E [auth A], F [auth B], J [auth C] | PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L | |||
SO4 Query on SO4 | G [auth B] H [auth B] I [auth B] K [auth C] L [auth C] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |
Biologically Interesting Molecules (External Reference) 1 Unique
Entity ID: 2 | |||||
---|---|---|---|---|---|
ID | Chains | Name | Type/Class | 2D Diagram | 3D Interactions |
PRD_900003 Query on PRD_900003 | D | sucrose | Oligosaccharide / Nutrient |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.40 Å
- R-Value Free: 0.192 
- R-Value Work: 0.165 
- R-Value Observed: 0.168 
- Space Group: P 1 21 1
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 53.559 | α = 90 |
b = 62.838 | β = 100.86 |
c = 107.661 | γ = 90 |
Software Name | Purpose |
---|---|
Jupiter210 | data collection |
SCALEPACK | data scaling |
AMoRE | phasing |
REFMAC | refinement |
JUPITER210 | data reduction |
Entry History 
Deposition Data
- Released Date: 2003-04-08  Deposition Author(s): Hirotsu, S., Unno, M., Chu, G.C., Lee, D.S., Park, S.Y., Shiro, Y., Ikeda-Saito, M., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Revision History (Full details and data files)
- Version 1.0: 2003-04-08
Type: Initial release - Version 1.1: 2008-04-27
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Version format compliance - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Non-polymer description, Structure summary - Version 2.1: 2023-12-27
Changes: Data collection, Database references, Structure summary