Structure of PDB 5k8r Chain A Binding Site BS04

Receptor Information

>5k8r Chain A (length=414) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]

EPIRYAIPEELDRGSLVGNLAKDLGFGVGDLPTRNLRVIAEKKFFTVSPE
NGNLLVSDRIDREEICGKKSTCVLEFEMVAEKPLNFFHVTVLIQDINDNP
PTFSQNITELEISELALTGATFALESAQDPDVGVNSLQQYYLSPDPHFSL
IQKENLDGSRYPELVLKAPLDREEQPHHHLVLTAVDGGEPSRSCTTQIRV
IVADANDNPPVFTQDMYRVNVAENLPAGSSVLKVMAIDMDEGINAEIIYA
FINIGKEVRQLFKLDSKTGELTTIGELDFEERDSYTIGVEAKDGGHHTAY
CKVQIDISDENDNAPEITLASESQHIQEDAELGTAVALIKTHDLDSGFNG
EILCQLKGNFPFKIVQDTKNTYRLVTDGALDREQIPEYNVTITATDKGNP
PLSSSKTITLHILD

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

5k8r Chain A Residue 504 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]

Receptor-Ligand Complex Structure

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Structure summary

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PDB	5k8r Antiparallel protocadherin homodimers use distinct affinity- and specificity-mediating regions in cadherin repeats 1-4.
Resolution	2.5 Å
Binding residue (original residue number in PDB)	N311 N313 D343 D345 N349 D396
Binding residue (residue number reindexed from 1)	N311 N313 D343 D345 N349 D396
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

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Biological Process

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Cellular Component

External links

PDB	RCSB:5k8r, PDBe:5k8r, PDBj:5k8r
PDBsum	5k8r
PubMed	27472898
UniProt	Q9Y5G1\|PCDGF_HUMAN Protocadherin gamma-B3 (Gene Name=PCDHGB3)

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