4KBZ
Crystal Structure of Hypoxia-Inducible Factor Prolyl Hydroxylase (PHD2) with (S)-{2-[2-(5-Cyano-3-hydroxy-pyridin-2-yl)-thiazol-4-yl]-acetylamino}-phenyl-acetic acid
- PDB DOI: https://doi.org/10.2210/pdb4KBZ/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Homo sapiens
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): Yes 
- Deposited: 2013-04-24 Released: 2013-05-15 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.15 Å
- R-Value Free: 0.230 
- R-Value Work: 0.211 
- R-Value Observed: 0.211 
Starting Model: experimental
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This is version 1.1 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 |
Egl nine homolog 1 | 238 | Homo sapiens | Mutation(s): 1  Gene Names: EGLN1, C1orf12, PNAS-118, PNAS-137 EC: 1.14.11.29 | ![]() | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q9GZT9 (Homo sapiens) Explore Q9GZT9  Go to UniProtKB:  Q9GZT9 | |||||
PHAROS:  Q9GZT9 GTEx:  ENSG00000135766  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q9GZT9 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
Ligands 3 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
1QA Query on 1QA | B [auth A] | (2S)-({[2-(5-cyano-3-hydroxypyridin-2-yl)-1,3-thiazol-4-yl]acetyl}amino)(phenyl)ethanoic acid C19 H14 N4 O4 S KPGRSPXHOOAVBE-INIZCTEOSA-N | |||
SO4 Query on SO4 | D [auth A], E [auth A], F [auth A] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L | |||
FE2 Query on FE2 | C [auth A] | FE (II) ION Fe CWYNVVGOOAEACU-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.15 Å
- R-Value Free: 0.230 
- R-Value Work: 0.211 
- R-Value Observed: 0.211 
- Space Group: P 41
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 72.207 | α = 90 |
b = 72.207 | β = 90 |
c = 46.01 | γ = 90 |
Software Name | Purpose |
---|---|
HKL-2000 | data collection |
PHASES | phasing |
CNS | refinement |
HKL-2000 | data reduction |
HKL-2000 | data scaling |
Entry History 
Deposition Data
- Released Date: 2013-05-15  Deposition Author(s): Kim, H.T., Hong, Y.R., Chang, H.J.
Revision History (Full details and data files)
- Version 1.0: 2013-05-15
Type: Initial release - Version 1.1: 2023-09-20
Changes: Data collection, Database references, Derived calculations, Refinement description