1Q55

W-shaped trans interactions of cadherins model based on fitting C-cadherin (1L3W) to 3D map of desmosomes obtained by electron tomography

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 30.0 Å
  • Aggregation State: TISSUE 
  • Reconstruction Method: TOMOGRAPHY 

wwPDB Validation   3D Report Full Report


This is version 2.0 of the entry. See complete history. 


Literature

Untangling Desmosomal Knots with Electron Tomography

He, W., Cowin, P., Stokes, D.L.

(2003) Science 302: 109-113

  • DOI: https://doi.org/10.1126/science.1086957
  • Primary Citation of Related Structures:  
    1Q55, 1Q5A, 1Q5B, 1Q5C

  • PubMed Abstract: 

    Cell adhesion by adherens junctions and desmosomes relies on interactions between cadherin molecules. However, the molecular interfaces that define molecular specificity and that mediate adhesion remain controversial. We used electron tomography of plastic sections from neonatal mouse skin to visualize the organization of desmosomes in situ. The resulting three-dimensional maps reveal individual cadherin molecules forming discrete groups and interacting through their tips. Fitting of an x-ray crystal structure for C-cadherin to these maps is consistent with a flexible intermolecular interface mediated by an exchange of amino-terminal tryptophans. This flexibility suggests a novel mechanism for generating both cis and trans interactions and for propagating these adhesive interactions along the junction.

    • Organizational Affiliation: 

    Skirball Institute of Biomolecular Medicine, New York University School of Medicine, 540 First Avenue, New York, NY 10016, USA..


Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
EP-cadherin
A, B, C, D
880Mus musculusMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Glycosylation
Glycosylation Sites: 15
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
NDG
Query on NDG
Download Ideal Coordinates CCD File 
H [auth A]
IA [auth B]
JB [auth C]
KC [auth D]
O [auth A]
H [auth A],
IA [auth B],
JB [auth C],
KC [auth D],
O [auth A],
PA [auth B],
QB [auth C],
RC [auth D]
2-acetamido-2-deoxy-alpha-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-PVFLNQBWSA-N
NAG
Query on NAG
Download Ideal Coordinates CCD File 
E [auth A]
F [auth A]
FA [auth B]
G [auth A]
GA [auth B]
E [auth A],
F [auth A],
FA [auth B],
G [auth A],
GA [auth B],
GB [auth C],
HA [auth B],
HB [auth C],
HC [auth D],
I [auth A],
IB [auth C],
IC [auth D],
J [auth A],
JA [auth B],
JC [auth D],
K [auth A],
KA [auth B],
KB [auth C],
L [auth A],
LA [auth B],
LB [auth C],
LC [auth D],
M [auth A],
MA [auth B],
MB [auth C],
MC [auth D],
N [auth A],
NA [auth B],
NB [auth C],
NC [auth D],
OA [auth B],
OB [auth C],
OC [auth D],
P [auth A],
PB [auth C],
PC [auth D],
Q [auth A],
QA [auth B],
QC [auth D],
R [auth A],
RA [auth B],
RB [auth C],
S [auth A],
SA [auth B],
SB [auth C],
SC [auth D],
TA [auth B],
TB [auth C],
TC [auth D],
UB [auth C],
UC [auth D],
VC [auth D]
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
CA
Query on CA
Download Ideal Coordinates CCD File 
AA [auth A]
AB [auth B]
AC [auth C]
AD [auth D]
BA [auth A]
AA [auth A],
AB [auth B],
AC [auth C],
AD [auth D],
BA [auth A],
BB [auth B],
BC [auth C],
BD [auth D],
CA [auth A],
CB [auth B],
CC [auth C],
CD [auth D],
DA [auth A],
DB [auth B],
DC [auth C],
DD [auth D],
EA [auth A],
EB [auth B],
EC [auth C],
ED [auth D],
FB [auth B],
FC [auth C],
FD [auth D],
GC [auth C],
GD [auth D],
HD [auth D],
T [auth A],
U [auth A],
UA [auth B],
V [auth A],
VA [auth B],
VB [auth C],
W [auth A],
WA [auth B],
WB [auth C],
WC [auth D],
X [auth A],
XA [auth B],
XB [auth C],
XC [auth D],
Y [auth A],
YA [auth B],
YB [auth C],
YC [auth D],
Z [auth A],
ZA [auth B],
ZB [auth C],
ZC [auth D]
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 30.0 Å
  • Aggregation State: TISSUE 
  • Reconstruction Method: TOMOGRAPHY 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONIMOD

Structure Validation

View Full Validation Report



View more in-depth experimental data
Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2003-10-07
    Type: Initial release
  • Version 1.1: 2007-10-16
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Non-polymer description, Version format compliance
  • Version 1.3: 2018-07-18
    Changes: Data collection
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary