Structure of PDB 6vft Chain C

Receptor sequence

>6vftC (length=420) Species: 9606 (Homo sapiens)

LKNLNYSVPEEQGAGTVIGNIGRDARLQPGSYRVLENSAPHLLDVDADSG
LLYTKQRIDRESLCRHNAKCQLSLEVFANDKEICMIKVEIQDINDNAPSF
SSDQIEMDISENAAPGTRFPLTSAHDPDAGENGLRTYLLTRDDHGLFGLD
VKSRGDGTKFPELVIQKALDREQQNHHTLVLTALDGGEPPRSATVQINVK
VIDSNDNSPVFEAPSYLVELPENAPLGTVVIDLNATDADEGPNGEVLYSF
SSYVPDRVRELFSIDPKTGLIRVKGNLDYEENGMLEIDVQARDLGPNPIP
AHCKVTVKLIDRNDNAPSIGFVSVRQGALSEAAPPGTVIALVRVTDRDSG
KNGQLQCRVLGGSVPFKLEENYDNFYTVVTDRPLDRETQDEYNVTIVARD
GGSPPLNSTKSFAIKILDHH

3D structure

• PDB: 6vft Family-wide Structural and Biophysical Analysis of Binding Interactions among Non-clustered delta-Protocadherins.
• Chain: C
• 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	C	E10 E11 D74 E76 D110	E10 E11 D59 E61 D95
BS02	CA	C	E10 E76 D107 I108 D110 D143	E10 E61 D92 I93 D95 D128
BS03	CA	C	N109 N111 D141 D143 N147 D200	N94 N96 D126 D128 N132 D185
BS04	CA	C	E126 D185 E187 D221	E111 D170 E172 D206
BS05	CA	C	N220 N222 D252 D254 N258 D308	N205 N207 D237 D239 N243 D293
BS06	CA	C	E126 E187 D218 S219 D221 D254	E111 E172 D203 S204 D206 D239
BS07	CA	C	N328 N330 D361 D363 N367 D429	N313 N315 D346 D348 N352 D400
BS08	CA	C	E237 N238 D293 E295 D329	E222 N223 D278 E280 D314
BS09	CA	C	E237 E295 D326 R327 D329 D363	E222 E280 D311 R312 D314 D348
BS10	MAN	C	D118 T209	D103 T194
BS11	CA	C	D247 L248 N249 T283	D232 L233 N234 T268

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)