1C39

STRUCTURE OF CATION-DEPENDENT MANNOSE 6-PHOSPHATE RECEPTOR BOUND TO PENTAMANNOSYL PHOSPHATE

Structural Biology Knowledgebase: 1C39 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.246
  • R-Value Work: 0.210

Literature

Macromolecules
Sequence Display for 1C39

Classification: SIGNALING PROTEIN

Total Structure Weight: 36554.48

Macromolecule Entities
Molecule Chains Length Organism Details
CATION-DEPENDENT MANNOSE-6-PHOSPHATE RECEPTOR A, B 152 Bos taurus Fragment: EXTRACYTOPLASMIC DOMAIN
Mutation: N31Q, N57Q, N68Q, N87Q
Gene Name(s): M6PR Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
P3M
Query on P3M

A, B 1-3 SUGAR RING OF PENTAMANNOSYL 6-PHOSPHATE
C18 H33 O19 P
HDQMHAJOIVYOIP-NAVBLJQLSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NAG
Query on NAG

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

A, B MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.246
  • R-Value Work: 0.210
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 42.84 α = 90.00
b = 79.31 β = 100.33
c = 55.57 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1999-07-25
  • Released Date: 2000-01-14
  • Deposition author(s): Olson, L.J., Zhang, J., Lee, Y.C., Dahms, N.M., Kim, J.J.-P.

Revision History

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