5WOL

Crystal structure of dihydrodipicolinate reductase DapB from Coxiella burnetii


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.218 
  • R-Value Work: 0.178 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Crystal structure of dihydrodipicolinate reductase DapB from Coxiella burnetii

Stogios, P.J.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
4-hydroxy-tetrahydrodipicolinate reductase
A
239Coxiella burnetii (strain RSA 493 / Nine Mile phase I)Gene Names: dapB
EC: 1.17.1.8
Find proteins for P24703 (Coxiella burnetii (strain RSA 493 / Nine Mile phase I))
Go to UniProtKB:  P24703
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
6PC
Query on 6PC

Download SDF File 
Download CCD File 
A
PYRIDINE-2-CARBOXYLIC ACID
PICOLINIC ACID
C6 H5 N O2
SIOXPEMLGUPBBT-UHFFFAOYSA-N
 Ligand Interaction
NAP
Query on NAP

Download SDF File 
Download CCD File 
A
NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE
C21 H28 N7 O17 P3
XJLXINKUBYWONI-NNYOXOHSSA-N
 Ligand Interaction
PE3
Query on PE3

Download SDF File 
Download CCD File 
A
3,6,9,12,15,18,21,24,27,30,33,36,39-TRIDECAOXAHENTETRACONTANE-1,41-DIOL
POLYETHYLENE GLYCOL
C28 H58 O15
ILLKMACMBHTSHP-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.218 
  • R-Value Work: 0.178 
  • Space Group: I 2 2 2
Unit Cell:
Length (Å)Angle (°)
a = 73.605α = 90.00
b = 78.795β = 90.00
c = 84.074γ = 90.00
Software Package:
Software NamePurpose
HKL-3000data scaling
PHENIXrefinement
MOLREPphasing
HKL-3000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationCountryGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious DiseasesUnited StatesHHSN272201200026C

Revision History 

  • Version 1.0: 2017-08-16
    Type: Initial release
  • Version 1.1: 2017-09-20
    Type: Author supporting evidence