5LA9

HIF prolyl hydroxylase 2 (PHD2-R281C/V314C) cross-linked to HIF-1alpha NODD-L397C/D412C and N-oxalylglycine (NOG) (complex-2)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.81 Å
  • R-Value Free: 0.278
  • R-Value Work: 0.251

Literature

Macromolecules
Sequence Display for 5LA9

Classification: OXIDOREDUCTASE

Total Structure Weight: 60147.96

Macromolecule Entities
Molecule Chains Length Organism Details
Egl nine homolog 1 A, B 252 Homo sapiens EC#: 1.14.11.29 IUBMB
Fragment: CATALYTIC DOMAIN UNP residues 181-426
Mutation: C201A, R281C, V314C, R398A
Gene Name(s): EGLN1 Gene View C1orf12 PNAS-118 PNAS-137
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Hypoxia-inducible factor 1-alpha C, D 19 Homo sapiens Fragment: N-TERMINAL OXYGEN DEPENDENT DEGRADATION DOMAIN (NODD), UNP residues 395-413
Mutation: L397C, D412C
Gene Name(s): HIF1A Gene View BHLHE78 MOP1 PASD8
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B N-OXALYLGLYCINE
C4 H5 N O5
BIMZLRFONYSTPT-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MN
Query on MN

A, B MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.81 Å
  • R-Value Free: 0.278
  • R-Value Work: 0.251
  • Space Group: P 21 21 2

Unit Cell:

Length (Å) Angle (°)
a = 88.47 α = 90.00
b = 97.33 β = 90.00
c = 71.00 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2016-06-14
  • Released Date: 2016-08-31
  • Deposition author(s): Chowdhury, R., Schofield, C.J.

Revision History

  • 2016-09-07
    Type: Database references