1IX1

Crystal Structure of P.aeruginosa Peptide deformylase Complexed with Antibiotic Actinonin

Structural Biology Knowledgebase: 1IX1 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.214
  • R-Value Work: 0.185

Literature

Macromolecules
Sequence Display for 1IX1

Classification: HYDROLASE

Total Structure Weight: 40893.60

Macromolecule Entities
Molecule Chains Length Organism Details
peptide deformylase A, B 171 Pseudomonas aeruginosa EC#: 3.5.1.88 IUBMB
Gene Name(s): def PA0019
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
BB2
Query on BB2

A, B ACTINONIN
2-[(FORMYL-HYDROXY-AMINO)-METHYL]-HEPTANOIC ACID [1- (2-HYDROXYMETHYL-PYRROLIDINE-1-CARBONYL)- 2-METHYL-PROPYL]-AMIDE (Synonym)
C19 H35 N3 O5
XJLATMLVMSFZBN-VYDXJSESSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MHA
Query on MHA

A, B (CARBAMOYLMETHYL-CARBOXYMETHYL-AMINO)-ACETIC ACID
N-(2-ACETAMIDO)IMINODIACETIC ACID (Synonym)
C6 H10 N2 O5
QZTKDVCDBIDYMD-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A, B ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.214
  • R-Value Work: 0.185
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 68.75 α = 90.00
b = 74.46 β = 90.00
c = 77.18 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-06-07
  • Released Date: 2003-09-09
  • Deposition author(s): Kim, H.-W., Yoon, H.-J., Lee, J.Y., Han, B.W., Yang, J.K., Lee, B.I., Ahn, H.J., Lee, H.H., Suh, S.W.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4