Structure of PDB 7ym0 Chain B Binding Site BS01

Receptor Information

>7ym0 Chain B (length=301) Species: 1424779 (Thermocrispum sp. RD004668) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]

DNPWLDARVLNMAHAGGENEAPANTLYAFKRAVKLGANMLELDVQSTKDD
QLVVIHNATVDQTTDGTGKVRDLTFEQVHELDAAYNFIPGRHAVPGEPPE
SYPLRGVRTGEKKPPPGYQPSDFAIPKLADVLEAFPRTPINIEIKGTSDA
DIPSFLHNAKLLARLLKKTGRTDFIVTSFNDLAVAKFHLLAPDIPIAPGM
AGLAAYFLLGVKPMHGTVALQIPVRYQGLEIATPEFIRRAHADGYAVHVW
FSGTAPDDEATYNRIIDSCADGLMPAYPALLERILDERGIERPGRPGVDP
C

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

7ym0 Chain B Residue 401 [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	7ym0 Structural basis for the substrate specificity switching of lysoplasmalogen-specific phospholipase D from Thermocrispum sp. RD004668.
Resolution	2.91 Å
Binding residue (original residue number in PDB)	E73 D75 E175
Binding residue (residue number reindexed from 1)	E41 D43 E143
Annotation score	4

Enzymatic activity

Enzyme Commision number

Gene Ontology

	Molecular Function
GO:0008081	phosphoric diester hydrolase activity
GO:0046872	metal ion binding

	Biological Process
GO:0006629	lipid metabolic process

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Molecular Function

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Biological Process

External links

PDB	RCSB:7ym0, PDBe:7ym0, PDBj:7ym0
PDBsum	7ym0
PubMed	36307380
UniProt	A0A0U4VTN7

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