Structure of PDB 6vfq Chain A Binding Site BS06

Receptor Information

>6vfq Chain A (length=424) Species: 9606 (Homo sapiens)

QLHYTVQEEQEHGTFVGNIAEDLGLDITKLSARGFQTVPNSRTPYLDLNL
ETGVLYVNEKIDREQICKQSPSCVLHLEVFLENPLELFQVEIEVLDINDN
PPSFPEPDLTVEISESATPGTRFPLESAFDPDVGTNSLRDYEITPNSYFS
LDVQTQGDGNRFAELVLEKPLDREQQAVHRYVLTAVDGGGGAGLPPQQQR
TGTALLTIRVLDSNDNVPAFDQPVYTVSLPENSPPGTLVIQLNATDPDEG
QNGEVVYSFSSHISPRARELFGLSPRTGRLEVSGELDYEESPVYQVYVQA
KDLGPNAVPAHCKVLVRVLDANDNAPEISFSTVKEAVSEGAAPGTVVALF
SVTDRDSEENGQVQCELLGDVPFRLKSSFKNYYTIVTEAPLDREAGDSYT
LTVVARDRGEPALSTSKSIQVQVS

Ligand information

• Ligand ID: CA
• InChI: InChI=1S/Ca/q+2
• InChIKey: BHPQYMZQTOCNFJ-UHFFFAOYSA-N
• SMILES:
  CACTVS 3.341: [Ca++]
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Ca+2]
• Formula: Ca
• Name: CALCIUM ION
• DrugBank: DB14577
• PDB chain: 6vfq Chain A Residue 506

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6vfq Family-wide Structural and Biophysical Analysis of Binding Interactions among Non-clustered delta-Protocadherins.
• Resolution: 2.3 Å
• Binding residue (original residue number in PDB): N227 N229 D259 D261 N265 D315
• Binding residue (residue number reindexed from 1): N214 N216 D246 D248 N252 D302
• Annotation score: 4

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:6vfq, PDBe:6vfq, PDBj:6vfq
• PDBsum: 6vfq
• PubMed: 32101743
• UniProt: Q9P2E7|PCD10_HUMAN Protocadherin-10 (Gene Name=PCDH10)