3T6Q

Crystal structure of mouse RP105/MD-1 complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.231
  • R-Value Work: 0.186

Literature

Macromolecules
Sequence Display for 3T6Q

Classification: IMMUNE SYSTEM

Total Structure Weight: 177251.05

Macromolecule Entities
Molecule Chains Length Organism Details
CD180 antigen A, B 606 Mus musculus Fragment: UNP RESIDUES 21-626
Gene Name(s): Cd180 Ly78 Rp105
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Lymphocyte antigen 86 C, D 145 Mus musculus Gene Name(s): Ly86 Md1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NAG
Query on NAG

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

A, B BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A, B, C, D GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CU
Query on CU

A COPPER (II) ION
Cu
JPVYNHNXODAKFH-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: 0.231
  • R-Value Work: 0.186
  • Space Group: P 21 21 2

Unit Cell:

Length (Å) Angle (°)
a = 143.75 α = 90.00
b = 192.79 β = 90.00
c = 75.80 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-07-28
  • Released Date: 2011-11-09
  • Deposition author(s): Ohto, U., Shimizu, T.

Revision History

  • Version 1_0: 2011-11-09

    Type: Initial release