Structure of PDB 5yl1 Chain A Binding Site BS01

Receptor Information
>5yl1 Chain A (length=185) Species: 430911 (Penaeus vannamei nodavirus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
ISRLGPDSDFLTSVVAKASTSIVTPADRILVKQPLSASSFPGTRITGLSS
YWERYKWLSAVARYVPAVPNTVACQFVMYIDTDPLDDPSNISDDNQIVRQ
AVSQAGSNQFNFNTSKTVPLIVRADNQYYYTGVDKQNLRFSLQGILYIIQ
VTDLINFNGELITQDLTCGSLFLDWLVNFSIPQIN
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 chain5yl1 Chain A Residue 301 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB5yl1 The atomic structures of shrimp nodaviruses reveal new dimeric spike structures and particle polymorphism.
Resolution3.12 Å
Binding residue
(original residue number in PDB)		E118 N250
Binding residue
(residue number reindexed from 1)		E53 N185
Annotation score4
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0005198 structural molecule activity
Cellular Component
GO:0019028 viral capsid

View graph for
Molecular Function
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Cellular Component
External links
PDB RCSB:5yl1, PDBe:5yl1, PDBj:5yl1
PDBsum5yl1
PubMed30820467
UniProtA5H7Q8

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