3K9W

Crystal structure of phosphopantetheine adenylyltransferase from Burkholderia pseudomallei with hydrolyzed 3'-dephospho Coenzyme A

Structural Biology Knowledgebase: 3K9W SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.207
  • R-Value Work: 0.191

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3K9W

Classification: TRANSFERASE

Total Structure Weight: 21763.78

Macromolecule Entities
Molecule Chains Length Organism Details
Phosphopantetheine adenylyltransferase A 187 Burkholderia pseudomallei EC#: 2.7.7.3 IUBMB
Gene Name(s): coaD BURPS1710b_0748

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
4PS
Query on 4PS

A 4'-diphospho pantetheine
3-dimethylbutanoyl]-N-(2-sulfanylethyl)- beta-alaninamide, (Synonym)
C11 H24 N2 O10 P2 S
UQURMDBHCKDEJS-VIFPVBQESA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PG4
Query on PG4

A TETRAETHYLENE GLYCOL
C8 H18 O5
UWHCKJMYHZGTIT-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ADE
Query on ADE

A ADENINE
C5 H5 N5
GFFGJBXGBJISGV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACT
Query on ACT

A ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.207
  • R-Value Work: 0.191
  • Space Group: I 4 3 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 134.43 α = 90.00
b = 134.43 β = 90.00
c = 134.43 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-10-16
  • Released Date: 2009-11-03
  • Deposition author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History

  • 2013-10-30
    Type: Citation | Details: Citation update
  • 2011-09-21
    Type: Citation | Details: Citation update
  • 2011-07-13
    Type: Source and taxonomy | Details: Removed strain from scientific name
  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor
  • 2011-07-13
    Type: Refinement description | Details: Fixed TLS group
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4