Structure of PDB 5dzx Chain B

Receptor sequence

>5dzxB (length=411) Species: 10090 (Mus musculus)

AIRYSIPEETESGYLVAHLAKDLGFRVGELATRRARIHHRGNKELLQLDV
ETGNLLLKEKPDREALCGATEPCVLHFQIILENPVQFFQTELQLTDINDH
SPEFPDTEMLLKIQESTQPATVFLLKAAQDSDIGSNAVQNYTVSPNLHFH
VVTLSRSDGRKYPELVLDRALDREEQPELTLILTALDGGAPPKSGTTTVR
IEVVDINDNAPEFVQSLYSVEVPENSPLDALVVTVSARDLDAGIHGNVAY
SLFQGGGGPQPFVIDEITGEIRLKGALDFEATSYYTMEIVATDSGGLSGK
CTVAIQVLDVNDNAPKLTISSLTSSIPENAPEAVVAVFSVSDPDSGDNGR
MVCSIQNELPFLLKPTFENYYTLAAEGPLDREIREEYNITIIVSDLGTPR
LTTQHTITVQV

3D structure

• PDB: 5dzx Structural Basis of Diverse Homophilic Recognition by Clustered alpha- and beta-Protocadherins.
• Chain: B
• Resolution: 2.879 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	CA	B	E9 E10 D63 E65 D100 H101	E8 E9 D62 E64 D99 H100
BS02	CA	B	E9 E65 D97 I98 D100 D133	E8 E64 D96 I97 D99 D132
BS03	CA	B	N99 H101 D131 D133 N137 D188	N98 H100 D130 D132 N136 D187
BS04	CA	B	E116 D173 E175 D209 N210	E115 D172 E174 D208 N209
BS05	CA	B	E116 R174 E175 D206 I207 D209 D242	E115 R173 E174 D205 I206 D208 D241
BS06	CA	B	N208 N210 D240 D242 H246 D294	N207 N209 D239 D241 H245 D293
BS07	CA	B	E225 D279 E281 D313	E224 D278 E280 D312
BS08	CA	B	E225 E281 D310 V311 D313 D345	E224 E280 D309 V310 D312 D344
BS09	CA	B	N312 N314 D343 D345 N349 D396	N311 N313 D342 D344 N348 D395

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:5dzx, PDBe:5dzx, PDBj:5dzx
• PDBsum: 5dzx
• PubMed: 27161523
• UniProt: Q91XZ4|PCDB6_MOUSE Protocadherin beta-6 (Gene Name=Pcdhb6)