1NF8

Crystal structure of PhzD protein active site mutant with substrate


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.210
  • R-Value Work: 0.134

Literature

Macromolecules
Sequence Display for 1NF8

Classification: HYDROLASE

Total Structure Weight: 23695.24

Macromolecule Entities
Molecule Chains Length Organism Details
phenazine biosynthesis protein phzD A 207 Pseudomonas aeruginosa EC#: 3.3.2.1 IUBMB
Mutation: D38A
Gene Name(s): phzD1 phzD2 PA1902 PA4213
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A B-OCTYLGLUCOSIDE
C14 H28 O6
HEGSGKPQLMEBJL-RKQHYHRCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ISC
Query on ISC

A (5S,6S)-5-[(1-carboxyethenyl)oxy]-6-hydroxycyclohexa- 1,3-diene-1-carboxylic acid
ISOCHORISMIC ACID (Synonym)
C10 H10 O6
NTGWPRCCOQCMGE-YUMQZZPRSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
ISC N/A in BindingDB
Kd: 15 nM  BindingMOAD
Kd: 15 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.210
  • R-Value Work: 0.134
  • Space Group: C 2 2 21

Unit Cell:

Length (Å) Angle (°)
a = 68.40 α = 90.00
b = 77.01 β = 90.00
c = 82.44 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-12-13
  • Released Date: 2003-06-17
  • Deposition author(s): Parsons, F., Calabrese, K., Eisenstein, E., Ladner, J.E.

Revision History

  • 2011-09-14
    Type: Non-polymer description | Details: --
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4