1K9J

Complex of DC-SIGNR and GlcNAc2Man3

Structural Biology Knowledgebase: 1K9J SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.240
  • R-Value Work: 0.194

Literature

Macromolecules
Sequence Display for 1K9J

Classification: SUGAR BINDING PROTEIN

Total Structure Weight: 33450.66

Macromolecule Entities
Molecule Chains Length Organism Details
mDC-SIGN2 TYPE I ISOFORM A, B 139 Homo sapiens Fragment: Carbohydrate recognition domain
Gene Name(s): CLEC4M Gene View CD209L CD209L1 CD299
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MAN
Query on MAN

A ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

A CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.240
  • R-Value Work: 0.194
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 50.23 α = 90.00
b = 57.04 β = 90.00
c = 89.26 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-10-29
  • Released Date: 2001-12-21
  • Deposition author(s): Feinberg, H., Mitchell, D.A., Drickamer, K., Weis, W.I.

Revision History

  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4