4F7W

Crystal structure of Klebsiella pneumoniae pantothenate kinase in complex with N-pentylpantothenamide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.226
  • R-Value Work: 0.185

Literature

Macromolecules
Sequence Display for 4F7W

Classification: TRANSFERASE BIOSYNTHETIC PROTEIN

Total Structure Weight: 313122.56

Macromolecule Entities
Molecule Chains Length Organism Details
Pantothenate kinase A, B, C..., D, E, F, G, HA, B, C, D, E, F, G, H 334 Klebsiella pneumoniae EC#: 1.2.1.8 IUBMB 2.7.1.33 IUBMB
Gene Name(s): coaA KPK_5321
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B, C, D, E, F, G, H ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PN4
Query on PN4

A, B, C, D, E, F, G (2R)-2,4-dihydroxy-3,3-dimethyl-N-[3-oxo- 3-(pentylamino)propyl]butanamide
N-Pentylpantothenamide (Synonym)
C14 H28 N2 O4
HWNKKPMQPCHGBA-LBPRGKRZSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
UNX
Query on UNX

A, B, C, D, F, G, H UNKNOWN ATOM OR ION
X
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Biologically Interesting Molecules 1 Unique
ID Chains Name Type/Class 2D Diagram 3D Interactions
PRD_001043
Query on PRD_001043
A, B, C, D, E, F, G N-pentylpantothenamide Non-polymer /
Antibiotic, Antimicrobial
Ligand Explorer Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.226
  • R-Value Work: 0.185
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 127.84 α = 90.00
b = 130.82 β = 90.00
c = 192.15 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-05-16
  • Released Date: 2013-04-10
  • Deposition author(s): Li, B., Tempel, W., Smil, D., Bolshan, Y., Hong, B.S., Park, H.W., Structural Genomics Consortium (SGC)

Revision History

  • 2013-04-17
    Type: Database references
  • 2013-08-07
    Type: Database references