1S20

A novel NAD binding protein revealed by the crystal structure of E. Coli 2,3-diketogulonate reductase (YiaK) NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET ER82

Structural Biology Knowledgebase: 1S20 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.250
  • R-Value Work: 0.191

Literature

Macromolecules
Sequence Display for 1S20

Classification: OXIDOREDUCTASE

Total Structure Weight: 311965.94

Macromolecule Entities
Molecule Chains Length Organism Details
Hypothetical oxidoreductase yiaK A, B, C..., D, E, F, G, HA, B, C, D, E, F, G, H 340 Escherichia coli EC#: 1.1.1.130 IUBMB
Mutation: M1M, M32M, M93M, M94M, M118M, M144M, M170M, M173M, M175M, M177M, M182M, M221M, M229M, M235M, M285M
Gene Name(s): dlgD yiaK b3575 JW3547
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B, D, F, G, H NICOTINAMIDE-ADENINE-DINUCLEOTIDE
C21 H27 N7 O14 P2
BAWFJGJZGIEFAR-NNYOXOHSSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
TLA
Query on TLA

A, B, D, F, G, H L(+)-TARTARIC ACID
C4 H6 O6
FEWJPZIEWOKRBE-JCYAYHJZSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A, B, C, D, E, F, G, H L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.250
  • R-Value Work: 0.191
  • Space Group: P 1

Unit Cell:

Length (Å) Angle (°)
a = 75.52 α = 79.55
b = 81.28 β = 77.22
c = 113.21 γ = 82.01

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2004-01-07
  • Released Date: 2004-01-20
  • Deposition author(s): Forouhar, F., Lee, I., Benach, J., Kulkarni, K., Xiao, R., Acton, T.B., Montelione, G.T., Tong, L., Northeast Structural Genomics Consortium (NESG)

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4