Structure of PDB 5vvm Chain B Binding Site BS04

Receptor Information

>5vvm Chain B (length=314) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]

SRPEFLNPIQTVSVLESAEPGTVIANITAIDHDLNPKLEYHIVGIVAKDD
TDRLVPNQEDAFAVNINTGSVMVKSPMNRELVATYEVTLSVIDNERSVSV
PNAKLTVNVLDVNDNTPQFKPFGITYYMERILEGATPGTTLIAVAAVDPD
KGLNGLVTYTLLDLVPPGYVQLEDSSAGKVIANRTVDYEEVHWLNFTVRA
SDNGSPPRAAEIPVYLEIVDINDNNPIFDQPSYQEEDVPVGTIILTVTAT
DADSGNFALIEYSLGDGESKFAINPTTGDIYVLSSLDREILTALAKDNPG
DVASNRRENSVQVV

Ligand information

Ligand ID

InChI

InChI=1S/Ca/q+2

InChIKey

BHPQYMZQTOCNFJ-UHFFFAOYSA-N

SMILES

Software	SMILES
CACTVS 3.341	[Ca++]
ACDLabs 10.04 OpenEye OEToolkits 1.5.0	[Ca+2]

Formula

Name

CALCIUM ION

PDB chain

5vvm Chain B Residue 2504 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]

Receptor-Ligand Complex Structure

Global view

Local view

Structure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]

PDB	5vvm Zooming in on Cadherin-23: Structural Diversity and Potential Mechanisms of Inherited Deafness.
Resolution	3.54 Å
Binding residue (original residue number in PDB)	E2284 D2338 E2340 D2374
Binding residue (residue number reindexed from 1)	E133 D187 E189 D223
Annotation score	4

Enzymatic activity

Enzyme Commision number

Gene Ontology

	Molecular Function
GO:0005509	calcium ion binding

	Biological Process
GO:0007155	cell adhesion
GO:0007156	homophilic cell adhesion via plasma membrane adhesion molecules

	Cellular Component
GO:0005886	plasma membrane
GO:0016020	membrane

View graph for
Molecular Function

View graph for
Biological Process

View graph for
Cellular Component

External links

PDB	RCSB:5vvm, PDBe:5vvm, PDBj:5vvm
PDBsum	5vvm
PubMed	30033219
UniProt	Q9H251\|CAD23_HUMAN Cadherin-23 (Gene Name=CDH23)

[Back to BioLiP]