1AFB

STRUCTURAL BASIS OF GALACTOSE RECOGNITION IN C-TYPE ANIMAL LECTINS

Structural Biology Knowledgebase: 1AFB SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.261
  • R-Value Work: 0.217

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1AFB

Classification: LECTIN

Total Structure Weight: 52171.52

Macromolecule Entities
Molecule Chains Length Organism Details
MANNOSE-BINDING PROTEIN-A 1, 2, 3 154 Rattus norvegicus Fragment: CLOSTRIPAIN FRAGMENT (RESIDUES 73 - 226)
Mutation: E185Q, N187D, H189W, G190Y, S191G
Details: PH 8.0, DATA COLLECTED AT 100K, 20% 2-METHYL,2-4 PENTANEDIOL (CRYOPROTECTANT)
Gene Name(s): Mbl1

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

1, 2, 3 N-ACETYL-D-GALACTOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-JAJWTYFOSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

1, 2, 3 CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

1, 3 CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.261
  • R-Value Work: 0.217
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 80.80 α = 90.00
b = 84.50 β = 104.30
c = 97.10 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1995-11-03
  • Released Date: 1996-04-03
  • Deposition author(s): Kolatkar, A.R., Weis, W.I.

Revision History

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