Structure of PDB 6ab6 Chain C Binding Site BS01

Receptor Information

>6ab6 Chain C (length=337) Species: 430911 (Penaeus vannamei nodavirus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]

RRRVVINQSNQSMPVTSNGAPLQALTSYSRPNVNKISRLGPDSDFLTSVV
AKASTSIVTPADRILVKQPLSASSFPGTRITGLSSYWERYKWLSAVARYV
PAVPNTVACQFVMYIDTDPLDDPSNISDDNQIVRQAVSQAGSNQFNFNTS
KTVPLIVRADNQYYYTGVDKQNLRFSLQGILYIIQVTDLINFNGELITQD
LTCGSLFLDWLVNFSIPQINPTSLTDVRVDKAVNFIKPEVSGVAEIQTVT
GLSPSTSYLLTPAFLEQNFQSEAGIYILSATPVEGEGTISINMDPTVTTV
SGFIKVKTDTFGTFDLSVVLTTASKKQTTGFNIIAAT

Ligand information

Ligand ID

InChI

InChI=1S/Ca/q+2

InChIKey

BHPQYMZQTOCNFJ-UHFFFAOYSA-N

SMILES

Software	SMILES
CACTVS 3.341	[Ca++]
ACDLabs 10.04 OpenEye OEToolkits 1.5.0	[Ca+2]

Formula

Name

CALCIUM ION

PDB chain

6ab6 Chain A Residue 403 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]

Receptor-Ligand Complex Structure

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Structure summary

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PDB	6ab6 The atomic structures of shrimp nodaviruses reveal new dimeric spike structures and particle polymorphism.
Resolution	3.5 Å
Binding residue (original residue number in PDB)	D146 D148 D151
Binding residue (residue number reindexed from 1)	D116 D118 D121
Annotation score	4

Enzymatic activity

Enzyme Commision number

Gene Ontology

	Molecular Function
GO:0005198	structural molecule activity
GO:0046872	metal ion binding

	Cellular Component
GO:0019028	viral capsid
GO:0044423	virion component

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Molecular Function

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Cellular Component

External links

PDB	RCSB:6ab6, PDBe:6ab6, PDBj:6ab6
PDBsum	6ab6
PubMed	30820467
UniProt	A5H7Q8

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