Structure of PDB 8q1k Chain A Binding Site BS01

Receptor Information
>8q1k Chain A (length=420) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
QRPAPCYDPCEAVLVESIPEGLDFPNAGNPSTSQAWLGLLAGAHSSLDIA
SFYWTLTNNDTHTQEPSAQQGEEVLRQLQTLAPKGVNVRIAVSKPSGPQP
QADLQALLQSGAQVRMVDMQKLTHGVLHTKFWVVDQTHFYLGSANMDWRS
LTQVKELGVVMYNCSCLARDLTKIFEAYWFLGQAGSSIPSTWPRFYDTRY
NQETPMEICLNGTPALAYLASAPPPLCPSGRTPDLKALLNVVDNARSFIY
VAVMNYLPTLEFSHPHRFWPAIDDGLRRATYERGVKVRLLISCWGHSEPS
MRAFLLSLAALRDNHTHSDIQVKLFVVPADEAQARIPYARVNHNKYMVTE
RATYIGTSNWSGNYFTETAGTSLLVTQNGRGGLRSQLEAIFLRDWDSPYS
HDLDTSADSVGNACRLLAAQ
Ligand information
Ligand IDMN
InChIInChI=1S/Mn/q+2
InChIKeyWAEMQWOKJMHJLA-UHFFFAOYSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Mn+2]
CACTVS 3.341[Mn++]
FormulaMn
NameMANGANESE (II) ION
ChEMBL
DrugBankDB06757
ZINC
PDB chain8q1k Chain A Residue 508 [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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PDB8q1k Structural analysis of PLD3 reveals insights into the mechanism of lysosomal 5' exonuclease-mediated nucleic acid degradation.
Resolution1.51 Å
Binding residue
(original residue number in PDB)		A295 L308 F438
Binding residue
(residue number reindexed from 1)		A222 L235 F365
Annotation score4
Enzymatic activity
Enzyme Commision number 3.1.16.1: spleen exonuclease.
Gene Ontology
Molecular Function
GO:0003824 catalytic activity

View graph for
Molecular Function
External links
PDB RCSB:8q1k, PDBe:8q1k, PDBj:8q1k
PDBsum8q1k
PubMed37994783
UniProtQ8IV08|PLD3_HUMAN 5'-3' exonuclease PLD3 (Gene Name=PLD3)

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