5F6R

Co-crystal Structure of 3-hydroxydecanoyl-(acyl carrier protein) Dehydratase from Yersinia pestis with 5-Benzoylpentanoic Acid


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.18 Å
  • R-Value Free: 0.166 
  • R-Value Work: 0.148 
  • R-Value Observed: 0.148 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

Co-crystal Structure of 3-hydroxydecanoyl-(acyl carrier protein) Dehydratase from Yersinia pestis with 5-Benzoylpentanoic Acid

Maltseva, N.Kim, Y.Zhang, R.Kwon, K.Anderson, W.F.Joachimiak, A.Center for Structural Genomics of Infectious Diseases (CSGID)

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
3-hydroxydecanoyl-[acyl-carrier-protein] dehydrataseA, B175Yersinia pestis CO92Mutation(s): 0 
Gene Names: fabAAK38_1122
EC: 4.2.1.59 (PDB Primary Data), 5.3.3.14 (UniProt)
UniProt
Find proteins for Q8ZG80 (Yersinia pestis)
Explore Q8ZG80 
Go to UniProtKB:  Q8ZG80
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8ZG80
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
5VO
Query on 5VO

Download Ideal Coordinates CCD File 
C [auth A],
E [auth B]
6-oxidanylidene-6-phenyl-hexanoic acid
C12 H14 O3
AIEMSTCGCMIJTI-UHFFFAOYSA-N
 Ligand Interaction
PO4
Query on PO4

Download Ideal Coordinates CCD File 
D [auth A]PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.18 Å
  • R-Value Free: 0.166 
  • R-Value Work: 0.148 
  • R-Value Observed: 0.148 
  • Space Group: P 21 21 21
  • Diffraction Data DOI: 10.18430/M35F6R
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 52.982α = 90
b = 54.885β = 90
c = 102.866γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-3000data reduction
HKL-3000data scaling
HKL-3000phasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2015-12-23
    Type: Initial release
  • Version 1.1: 2018-01-24
    Changes: Database references, Derived calculations