Structure of PDB 5dzy Chain B

Receptor sequence

>5dzyB (length=415) Species: 10090 (Mus musculus)

EAISYSMPEETESGYLVANLAQDLGLRVGELTTRGARIHHNGNKELLQLD
AERGNLLLKEKPDREALCGATEPCVLHFQIILENPVQFFQTDLQFTDIND
HFPEFPDTEMLLKIQEIAQPGTVFPLKAAQDPDIGSNAVQNYTVSPNLHF
HVVTLSRSDDRKYPELVLDRALDREEQPELTLILTALDGGAPPKSGTTTV
RIEVVDINDNAPQFLQSLYAVEVPENSPLNALVVTVSARDLDAGIHGNVA
YSLFQGGGGPQPFVIDEITGEIRLKGALDFEATSYYTMEIVATDSGGLSG
KCTVAIQVLDVNDNAPKLTISSLTSSIPENAPEAVVAVFSVSDPDSGDNG
RMVCSIQNGLPFLLKPTFKNFYTLVTERPLDRESNAEYNITITVSDLGTP
RLTTQHTITVQVSDI

3D structure

• PDB: 5dzy Structural Basis of Diverse Homophilic Recognition by Clustered alpha- and beta-Protocadherins.
• Chain: B
• Resolution: 2.9 Å

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	MAN	B	I183 T199	I183 T199
BS02	CA	B	E9 E10 D63 E65 D100	E9 E10 D63 E65 D100
BS03	CA	B	E9 E65 D97 I98 D100 H101 D133	E9 E65 D97 I98 D100 H101 D133
BS04	CA	B	N99 H101 D131 D133 N137 D188	N99 H101 D131 D133 N137 D188
BS05	CA	B	E116 E175 D206 I207 D209 D242	E116 E175 D206 I207 D209 D242
BS06	CA	B	E116 D173 E175 D209	E116 D173 E175 D209
BS07	CA	B	N208 N210 D240 D242 H246 D294	N208 N210 D240 D242 H246 D294
BS08	CA	B	E225 D279 E281 D313 N314	E225 D279 E281 D313 N314
BS09	CA	B	E225 E281 D310 V311 D313 D345	E225 E281 D310 V311 D313 D345
BS10	CA	B	N312 N314 D343 D345 N349 D396	N312 N314 D343 D345 N349 D396

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

External links

• PDB: RCSB:5dzy, PDBe:5dzy, PDBj:5dzy
• PDBsum: 5dzy
• PubMed: 27161523
• UniProt: Q91XZ2|PCDB8_MOUSE Protocadherin beta-8 (Gene Name=Pcdhb8)