Structure of PDB 6jjp Chain C Binding Site BS01

Receptor Information

>6jjp Chain C (length=117) Species: 9606 (Homo sapiens)

RPWNPPTFSPALLVVTEGDNATFTCSFSNTSESFVLNWYRMSPSNQTDKL
AAFPEDRSQPGQDCRFRVTQLPNGRDFHMSVVRARRNDSGTYLCGAISLA
PKAQIKESLRAELRVTE

Ligand information

• Ligand ID: FUC
• InChI: InChI=1S/C6H12O5/c1-2-3(7)4(8)5(9)6(10)11-2/h2-10H,1H3/t2-,3+,4+,5-,6+/m0/s1
• InChIKey: SHZGCJCMOBCMKK-SXUWKVJYSA-N
• SMILES:
  CACTVS 3.341: C[C@@H]1O[C@@H](O)[C@@H](O)[C@H](O)[C@@H]1O
  ACDLabs 10.04: OC1C(O)C(OC(O)C1O)C
  OpenEye OEToolkits 1.5.0: CC1C(C(C(C(O1)O)O)O)O
  OpenEye OEToolkits 1.5.0: C[C@H]1[C@H]([C@H]([C@@H]([C@@H](O1)O)O)O)O
  CACTVS 3.341: C[CH]1O[CH](O)[CH](O)[CH](O)[CH]1O
• Formula: C6 H12 O5
• Name: alpha-L-fucopyranose;
  alpha-L-fucose;
  6-deoxy-alpha-L-galactopyranose;
  L-fucose;
  fucose
• ChEMBL: CHEMBL1232862
• DrugBank: DB04473
• ZINC: ZINC000001532814
• PDB chain: 6jjp Chain G Residue 5

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6jjp Identification of a monoclonal antibody that targets PD-1 in a manner requiring PD-1 Asn58 glycosylation.
• Resolution: 2.9 Å
• Binding residue (original residue number in PDB): E61 F63 Q99
• Binding residue (residue number reindexed from 1): E32 F34 Q70
• Annotation score: 4

Gene Ontology

Biological Process

• GO:0050777 negative regulation of immune response

Cellular Component

• GO:0016020 membrane

External links

• PDB: RCSB:6jjp, PDBe:6jjp, PDBj:6jjp
• PDBsum: 6jjp
• PubMed: 31667366
• UniProt: Q15116|PDCD1_HUMAN Programmed cell death protein 1 (Gene Name=PDCD1)