Structure of PDB 6vel Chain C Binding Site BS01

Receptor Information
>6vel Chain C (length=209) Species: 9606,559292 [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
DWVIPPISCPENEKGPFPKNLVQIKSNKDKEGKVFYSITGQGADTPPVGV
FIIERETGWLKVTEPLDRERIATYTLFSHAGNAVEDPMEILITVTDQNDN
KPEFTQEVFKGSVMEGALPGTSVMEVTATDADDDVNTYNAAIAYTILSQD
PELPDKNMFTINRNTGVISVVTTGLDRESFPTYTLVVQAADLQGEGLSTT
ATAVITVTD
Ligand information
Ligand IDCA
InChIInChI=1S/Ca/q+2
InChIKeyBHPQYMZQTOCNFJ-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Ca++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Ca+2]
FormulaCa
NameCALCIUM ION
ChEMBL
DrugBankDB14577
ZINC
PDB chain6vel Chain C Residue 401 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB6vel Regulation of multiple dimeric states of E-cadherin by adhesion activating antibodies revealed through Cryo-EM and X-ray crystallography.
Resolution2.65 Å
Binding residue
(original residue number in PDB)		E112 D168 E170 D204
Binding residue
(residue number reindexed from 1)		E11 D67 E69 D99
Annotation score4
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0005509 calcium ion binding
GO:0005515 protein binding
GO:0031386 protein tag activity
GO:0042802 identical protein binding
GO:0044389 ubiquitin-like protein ligase binding
Biological Process
GO:0007155 cell adhesion
GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules
GO:0016925 protein sumoylation
GO:0098609 cell-cell adhesion
Cellular Component
GO:0000794 condensed nuclear chromosome
GO:0005634 nucleus
GO:0005886 plasma membrane
GO:0005940 septin ring
GO:0016020 membrane

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:6vel, PDBe:6vel, PDBj:6vel
PDBsum6vel
PubMed36157596
UniProtP12830|CADH1_HUMAN Cadherin-1 (Gene Name=CDH1);
Q12306|SMT3_YEAST Ubiquitin-like protein SMT3 (Gene Name=SMT3)

[Back to BioLiP]