Structure of PDB 6vft Chain A

Receptor sequence

>6vftA (length=413) Species: 9606 (Homo sapiens)

KNLNYSVPEEQGAGTVIGNIGRDARLQPYRVLENSAPHLLDVDADSGLLY
TKQRIDRESLCRHNAKCQLSLEVFANDKEICMIKVEIQDINDNAPSFSSD
QIEMDISENAAPGTRFPLTSAHDPDAGENGLRTYLLTRDDHGLFGLDVKS
RGDGTKFPELVIQKALDREQQNHHTLVLTALDGGEPPRSATVQINVKVID
SNDNSPVFEAPSYLVELPENAPLGTVVIDLNATDADEGPNGEVLYSFSSY
VPDRVRELFSIDPKTGLIRVKGNLDYEENGMLEIDVQARDLGPNPIPAHC
KVTVKLIDRNDNAPSIGFVSVRQGALSEAAPPGTVIALVRVTDRDSGKNG
QLQCRVLGGVPFKLEENYDNFYTVVTDRPLDRETQDEYNVTIVARDGGSP
PLNSTKSFAIKIL

3D structure

• PDB: 6vft Family-wide Structural and Biophysical Analysis of Binding Interactions among Non-clustered delta-Protocadherins.
• Chain: A
• Resolution: 3.71 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 D74 E76 D110	E9 E10 D56 E58 D92
BS02	CA	A	E10 E76 D107 I108 D110 D143	E9 E58 D89 I90 D92 D125
BS03	CA	A	N109 N111 D141 D143 N147 D200	N91 N93 D123 D125 N129 D182
BS04	CA	A	N220 N222 D252 D254 N258 D308	N202 N204 D234 D236 N240 D290
BS05	CA	A	E237 D293 E295 D329	E219 D275 E277 D311
BS06	CA	A	E237 E295 D326 R327 D329 D363	E219 E277 D308 R309 D311 D345
BS07	CA	A	N328 N330 D361 D363 N367 D429	N310 N312 D343 D345 N349 D396
BS08	CA	A	E126 D185 E187 D221	E108 D167 E169 D203
BS09	CA	A	E126 E187 D218 S219 D221 D254	E108 E169 D200 S201 D203 D236
BS10	MAN	A	T209 Q211	T191 Q193
BS11	CA	A	D247 L248 N249 T283	D229 L230 N231 T265

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:6vft, PDBe:6vft, PDBj:6vft
• PDBsum: 6vft
• PubMed: 32101743
• UniProt: O14917|PCD17_HUMAN Protocadherin-17 (Gene Name=PCDH17)