Structure of PDB 5iu9 Chain B

Receptor sequence

>5iu9B (length=422) Species: 7955 (Danio rerio)

FNLKYTVEEELRAGTKIANVTADAKVAGFALGNRQPYLRVISNSEPRWVN
LSPAGLLITKQKIDRDAVCRQTPKCFISLEVMSNSMEICVIKIEIIDVND
NAPRFPTNHIDIEISENAAPGTRFPLEGASDPDSGSNGIQTYTITPNDIF
GLEIKTRGDGSKIAELVVEKTLDRETQSRYTFELTAEDGGDPPKSGTVQL
NIKVIDSNDNNPVFDEPVYTVNVLENSPINTLVIDLNATDPDEGTNGEVV
YSFINFVSNLTKQMFKIDPKTGVITVNGVLDHEELHIHEIDVQAKDLGPN
SIPAHCKVIVNVIDINDNAPEIKLLSENSEMVEVSENAPLGYVIALVRVS
DNDSGANGKVQCRLQGNVPFRLNEFESFSTLLVDGRLDREQRDMYNLTIL
AEDSGYPPLRSSKSFAVKVTDL

3D structure

• PDB: 5iu9 Structural determinants of adhesion by Protocadherin-19 and implications for its role in epilepsy.
• Chain: B
• Resolution: 3.59 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	E10 E11 D65 D67 D101	E9 E10 D64 D66 D100
BS02	CA	B	E10 D67 D98 V99 D101 D134	E9 D66 D97 V98 D100 D133
BS03	CA	B	N100 N102 A103 D132 D134 N138 D189	N99 N101 A102 D131 D133 N137 D188
BS04	CA	B	E117 D174 E176 D210	E116 D173 E175 D209
BS05	CA	B	E117 E176 D207 S208 D210 D243	E116 E175 D206 S207 D209 D242
BS06	CA	B	N209 N211 D241 D243 N247 D297	N208 N210 D240 D242 N246 D296
BS07	CA	B	E226 D282 E284 D318 N319	E225 D281 E283 D317 N318
BS08	CA	B	E226 E284 D315 I316 D318 D354	E225 E283 D314 I315 D317 D353
BS09	CA	B	N317 N319 A320 D352 D354 N358 D404	N316 N318 A319 D351 D353 N357 D403

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:5iu9, PDBe:5iu9, PDBj:5iu9
• PDBsum: 5iu9
• PubMed: 27787195
• UniProt: F8W3X3|PCD19_DANRE Protocadherin-19 (Gene Name=pcdh19)