1Q5C

S-S-lambda-shaped TRANS and CIS interactions of cadherins model based on fitting C-cadherin (1L3W) to 3D map of desmosomes obtained by electron tomography

Structural Biology Knowledgebase: 1Q5C SBKB.org


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 30.0 Å
  • Aggregation State: Tissue
  • Specimen Type: Freeze Substitution
  • Reconstruction Method: Tomography

Literature

Macromolecules
Sequence Display for 1Q5C

Classification: STRUCTURAL PROTEIN

Total Structure Weight: 406213.25

Macromolecule Entities
Molecule Chains Length Organism Details
EP-cadherin A, B, C, D 880 Mus musculus Fragment: residues 1-546 of PDB entry 1L3W
Details: rigid body fit by C-cadherin from PDB entry 1L3W

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

A, B, C, D 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
C8 H15 N O6
OVRNDRQMDRJTHS-PVFLNQBWSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
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)
CA
Query on CA

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

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 30.0 Å
  • Aggregation State: Tissue
  • Specimen Type: Freeze Substitution
  • Reconstruction Method: Tomography

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-08-06
  • Released Date: 2003-10-07
  • Deposition author(s): He, W., Cowin, P., Stokes, D.L.

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