Structure of PDB 7nyd Chain D Binding Site BS03

Receptor Information
>7nyd Chain D (length=487) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
VTLMPIDCELSSWSSWTTCDPCQKKRYRYAYLLQPSQFHGEPCNFSDKEV
EDCVTNRPCRSQVRCEGFVCAQTGRCVNRRLLCNGDNDCGDQSDEANCRR
IYKKCQHEMDQYWGIGSLASGINLFTNSFEGPVLDHRYYAGGCSPHYILN
TRFRKPYNVESYTPQTQGKYEFILKEYESYSDFERNVTEKMASKDRGKHY
IRRTKRFSHTKSVFLHARSDLEVAHYKLKPRSLMLHYEFLQRVKRLPLEY
SYGEYRDLFRDFGTHYITEAVLGGIYEYTLVMNKEAMERGDYTLNNVHAR
GILNEIKDRNKRDTMVEDLVVLVRGGASEHITTLAYQELPTADLMQEWGD
AVQYNPAIIKVKVEPLYELVTATDFAYSSTVRQNMKQALEEFQKEVSSCH
CAPCQGNGVPVLKGSRCDCICPVGSQGLACEVSYRKNTPIDGKWNCWSNW
SSCSGRRKTRQRQCNNPPPQNGGSPCSGPASETLDCS
Ligand information
Ligand IDCA
InChIInChI=1S/Ca/q+2
InChIKeyBHPQYMZQTOCNFJ-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Ca++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Ca+2]
FormulaCa
NameCALCIUM ION
ChEMBL
DrugBankDB14577
ZINC
PDB chain7nyd Chain D Residue 603 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB7nyd Structural basis of soluble membrane attack complex packaging for clearance.
Resolution3.27 Å
Binding residue
(original residue number in PDB)		L84 N87 D89 D91 D97 E98
Binding residue
(residue number reindexed from 1)		L81 N84 D86 D88 D94 E95
Annotation score4
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0044877 protein-containing complex binding
Biological Process
GO:0006955 immune response
GO:0006956 complement activation
GO:0006957 complement activation, alternative pathway
GO:0006958 complement activation, classical pathway
GO:0031640 killing of cells of another organism
GO:0050778 positive regulation of immune response
Cellular Component
GO:0005576 extracellular region
GO:0005579 membrane attack complex
GO:0005615 extracellular space
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0070062 extracellular exosome
GO:1903561 extracellular vesicle

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:7nyd, PDBe:7nyd, PDBj:7nyd
PDBsum7nyd
PubMed34667172
UniProtP07358|CO8B_HUMAN Complement component C8 beta chain (Gene Name=C8B)

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