4NNC

Ternary complex of ObcA with C4-CoA adduct and oxalate

Structural Biology Knowledgebase: 4NNC SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.28 Å
  • R-Value Free: 0.235
  • R-Value Work: 0.202

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4NNC

Classification: LYASE

Total Structure Weight: 60406.88

Macromolecule Entities
Molecule Chains Length Organism Details
OBCA, Oxalate Biosynthetic Component A A 542 Burkholderia glumae EC#: 4.1.3 IUBMB
Gene Name(s): bglu_2g18790

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

A (3S)-3-[2-[3-[[(2R)-4-[[[(2R,3S,4R,5R)-5- (6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy- oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy- oxidanyl-phosphoryl]oxy-3,3-dimethyl-2-oxidanyl- butanoyl]amino]propanoylamino]ethylsulfanyl]- 3-oxidanyl-butanoic acid
C25 H42 N7 O19 P3 S
FIZPFHAKAOWUQH-RCVSXOLZSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
OXL
Query on OXL

A OXALATE ION
C2 O4
MUBZPKHOEPUJKR-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CO
Query on CO

A COBALT (II) ION
Co
XLJKHNWPARRRJB-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.28 Å
  • R-Value Free: 0.235
  • R-Value Work: 0.202
  • Space Group: P 43 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 174.63 α = 90.00
b = 174.63 β = 90.00
c = 46.06 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-11-17
  • Released Date: 2014-03-19
  • Deposition author(s): Oh, J.T., Goo, E., Hwang, I., Rhee, S.

Revision History

  • 2014-05-07
    Type: Citation | Details: Citation update
  • 2014-04-23
    Type: Citation | Details: Citation update