1OD7

N-TERMINAL OF SIALOADHESIN IN COMPLEX WITH ME-A-9-N-(NAPHTHYL-2-CARBONYL)-AMINO-9-DEOXY-NEU5AC (NAP COMPOUND)

Structural Biology Knowledgebase: 1OD7 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.272
  • R-Value Work: 0.192

Literature

Macromolecules
Sequence Display for 1OD7

Classification: LECTIN / IMMNUE SYSTEM

Total Structure Weight: 13795.69

Macromolecule Entities
Molecule Chains Length Organism Details
SIALOADHESIN A 119 Mus musculus Fragment: DOMAIN ONE, IG-LIKE V-TYPE DOMAIN, RESIDUES 20-138
Details: BOUND TO ME-A-9-N-(NAPHTHYL-2-CARBONYL)-AMINO-9-DEOXY-NEU5AC
Gene Name(s): Siglec1 Sa Sn
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A ME-A-9-N-(NAPHTHYL-2-CARBONYL)-AMINO-9-DEOXY- NEU5AC
C23 H28 N2 O9
NCJJDBXUFQPTHE-GCIBVHORSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.272
  • R-Value Work: 0.192
  • Space Group: P 43 21 2

Unit Cell:

Length (Å) Angle (°)
a = 64.87 α = 90.00
b = 64.87 β = 90.00
c = 64.05 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-02-14
  • Released Date: 2003-05-16
  • Deposition author(s): Zaccai, N.R., Maenaka, K., Maenaka, T., Crocker, P.R., Brossmer, R., Kelm, S., Jones, E.Y.

Revision History

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