Structure of PDB 5iu9 Chain A

Receptor sequence

>5iu9A (length=417) Species: 7955 (Danio rerio)

VFNLKYTVEEELRAGTKIANVTADAKVAGFAPYLRVISNSEPRWVNLSPA
GLLITKQKIDRDAVCRQTPKCFISLEVMSNSMEICVIKIEIIDVNDNAPR
FPTNHIDIEISENAAPGTRFPLEGASDPDSGSNGIQTYTITPNDIFGLEI
KTRGDGSKIAELVVEKTLDRETQSRYTFELTAEDGGDPPKSGTVQLNIKV
IDSNDNNPVFDEPVYTVNVLENSPINTLVIDLNATDPDEGTNGEVVYSFI
NFVSNLTKQMFKIDPKTGVITVNGVLDHEELHIHEIDVQAKDLGPNSIPA
HCKVIVNVIDINDNAPEIKLLSENSEMVEVSENAPLGYVIALVRVSDNDS
GANGKVQCRLQGNVPFRLNEFESFSTLLVDGRLDREQRDMYNLTILAEDS
GYPPLRSSKSFAVKVTD

3D structure

• PDB: 5iu9 Structural determinants of adhesion by Protocadherin-19 and implications for its role in epilepsy.
• Chain: A
• 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	A	E10 E11 D65 D67 D101	E10 E11 D60 D62 D96
BS02	CA	A	E10 D67 D98 V99 D101 D134	E10 D62 D93 V94 D96 D129
BS03	CA	A	N100 N102 D132 D134 D189	N95 N97 D127 D129 D184
BS04	CA	A	E117 D174 E176 D210	E112 D169 E171 D205
BS05	CA	A	E117 E176 D207 S208 D210 D243	E112 E171 D202 S203 D205 D238
BS06	CA	A	N209 N211 D241 D243 N247 D297	N204 N206 D236 D238 N242 D292
BS07	CA	A	E226 D282 E284 D318 N319	E221 D277 E279 D313 N314
BS08	CA	A	E226 E284 D315 I316 D318 D354	E221 E279 D310 I311 D313 D349
BS09	CA	A	N317 N319 D352 D354 N358 D404	N312 N314 D347 D349 N353 D399

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)