Structure of PDB 6vpb Chain B Binding Site BS01

Receptor Information

>6vpb Chain B (length=324) Species: 272568 (Gluconacetobacter diazotrophicus PA1 5) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]

MQIGIIGLGRMGGNIAVRLSRHGHDVVLFDRDAATVSKVSERIEGGRGVA
ATSLPDLVAKLTAKRKIVWVMLPCGEITENAVQELYGLLGKDDIVIDGGN
TYYKDDIRRAAQLADKGIHYVDVGTSGGVWGLERGYCMMYGGTKDSTDHI
DPILDALAPGKGDVAPTPDRGKPGLDPRAEKGYLHCGPAGSGHFVKMVHN
GIEYGMMQAFAEGFDIMKSKNSPKLPEDQRFDLNMADIAEVWRRGSVVSS
WLLDLTAEALAKNASLSEFTGEVADSGEGRWTLEAAIEEAVPAPVITASL
FTRFRSRTGNNYAEKVLSAMRFGF

Ligand information

Ligand ID

InChI

InChI=1S/Mg/q+2

InChIKey

JLVVSXFLKOJNIY-UHFFFAOYSA-N

SMILES

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

Formula

Name

MAGNESIUM ION

PDB chain

6vpb Chain B Residue 402 [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	6vpb The structure of a novel membrane-associated 6-phosphogluconate dehydrogenase from Gluconacetobacter diazotrophicus (Gd6PGD) reveals a subfamily of short-chain 6PGDs.
Resolution	1.87 Å
Binding residue (original residue number in PDB)	D275 S276 G279 R280
Binding residue (residue number reindexed from 1)	D275 S276 G279 R280
Annotation score	1

Enzymatic activity

Enzyme Commision number

Gene Ontology

	Molecular Function
GO:0004616	phosphogluconate dehydrogenase (decarboxylating) activity
GO:0046872	metal ion binding
GO:0050661	NADP binding

	Biological Process
GO:0006098	pentose-phosphate shunt
GO:0016054	organic acid catabolic process
GO:0019521	D-gluconate metabolic process

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Molecular Function

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Biological Process

External links

PDB	RCSB:6vpb, PDBe:6vpb, PDBj:6vpb
PDBsum	6vpb
PubMed	32621793
UniProt	A9H324

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