3E9K

Crystal structure of Homo sapiens kynureninase-3-hydroxyhippuric acid inhibitor complex

Structural Biology Knowledgebase: 3E9K SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.191
  • R-Value Work: 0.153

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3E9K

Classification: HYDROLASE

Total Structure Weight: 52883.42

Macromolecule Entities
Molecule Chains Length Organism Details
Kynureninase A 465 Homo sapiens EC#: 3.7.1.3 IUBMB
Gene Name(s): KYNU Gene View

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

A PYRIDOXAL-5'-PHOSPHATE
VITAMIN B6 Phosphate (Synonym)
C8 H10 N O6 P
NGVDGCNFYWLIFO-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
3XH
Query on 3XH

A 3-Hydroxyhippuric acid
N-[(3-hydroxyphenyl)carbonyl]glycine (Synonym)
C9 H9 N O4
XDOFWFNMYJRHEW-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
3XH Ki: 60000 nM (100) BindingDB

Ki: 60000 nM  BindingMOAD
N/A in PDBbind
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
CSX
Query on CSX
A L-PEPTIDE LINKING C3 H7 N O3 S CYS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.191
  • R-Value Work: 0.153
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 74.44 α = 90.00
b = 77.12 β = 109.35
c = 94.56 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-08-22
  • Released Date: 2008-12-09
  • Deposition author(s): Lima, S., Kumar, S., Gawandi, V., Momany, C., Phillips, R.S.

Revision History

  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4