1NPD

X-RAY STRUCTURE OF SHIKIMATE DEHYDROGENASE COMPLEXED WITH NAD+ FROM E.COLI (YDIB) NORTHEAST STRUCTURAL GENOMICS RESEARCH CONSORTIUM (NESG) TARGET ER24


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.274
  • R-Value Work: 0.217

Literature

Macromolecules
Sequence Display for 1NPD

Classification: STRUCTURAL GENOMICS UNKNOWN FUNCTION

Total Structure Weight: 64874.00

Macromolecule Entities
Molecule Chains Length Organism Details
HYPOTHETICAL SHIKIMATE 5-DEHYDROGENASE-LIKE PROTEIN YDIB A, B 288 Escherichia coli EC#: 1.1.1.282 IUBMB
Mutation: M1M, M13M, M25M, M40M, M61M, M68M, M127M, M208M, M238M, M258M, M284M
Gene Name(s): ydiB
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NAD
Query on NAD

A, B NICOTINAMIDE-ADENINE-DINUCLEOTIDE
C21 H27 N7 O14 P2
BAWFJGJZGIEFAR-NNYOXOHSSA-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 L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.274
  • R-Value Work: 0.217
  • Space Group: P 64

Unit Cell:

Length (Å) Angle (°)
a = 157.18 α = 90.00
b = 157.18 β = 90.00
c = 39.78 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-01-17
  • Released Date: 2003-01-28
  • Deposition author(s): Benach, J., Kuzin, A.P., Lee, I., Rost, B., Chiang, Y., Acton, T.B., Montelione, G.T., Hunt, J.F., Northeast Structural Genomics Consortium (NESG)

Revision History

  • 2008-04-29
    Type: Version format compliance
  • 2011-07-13
    Type: Version format compliance