Structure of PDB 3w2y Chain D Binding Site BS01

Receptor Information
>3w2y Chain D (length=256) Species: 187420 (Methanothermobacter thermautotrophicus str. Delta H) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
TVLKIISWNVNGLRAVHRKGFLKWFMEEKPDILCLQEIKAAPEQLPRKLR
HVEGYRSFFTPAERKGYSGVAMYTKVPPSSLREGFGVERFDTEGRIQIAD
FDDFLLYNIYFPNGKMSEERLKYKLEFYDAFLEDVNRERDSGRNVIICGD
FNTAHREIDLARPKENSNVSGFLPVERAWIDKFIENGYVDTFRMFNSDPG
QYTSWSYRTRARERNVGWRLDYFFVNEEFKGKVKRSWILSDVMGSDHCPI
GLEIEL
Ligand information
Ligand IDMG
InChIInChI=1S/Mg/q+2
InChIKeyJLVVSXFLKOJNIY-UHFFFAOYSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Mg+2]
CACTVS 3.341[Mg++]
FormulaMg
NameMAGNESIUM ION
ChEMBL
DrugBankDB01378
ZINC
PDB chain3w2y Chain D 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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PDB3w2y Crystal structure of DNA uridine endonuclease Mth212
Resolution1.9 Å
Binding residue
(original residue number in PDB)		N12 E38
Binding residue
(residue number reindexed from 1)		N11 E37
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) N12 E38 N153 D247 H248
Catalytic site (residue number reindexed from 1) N11 E37 N152 D246 H247
Enzyme Commision number 3.1.11.2: exodeoxyribonuclease III.
4.2.99.18: DNA-(apurinic or apyrimidinic site) lyase.
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0003824 catalytic activity
GO:0003906 DNA-(apurinic or apyrimidinic site) endonuclease activity
GO:0004518 nuclease activity
GO:0004519 endonuclease activity
GO:0008081 phosphoric diester hydrolase activity
GO:0008311 double-stranded DNA 3'-5' DNA exonuclease activity
GO:0016787 hydrolase activity
GO:0016829 lyase activity
GO:0046872 metal ion binding
GO:0140078 class I DNA-(apurinic or apyrimidinic site) endonuclease activity
Biological Process
GO:0006281 DNA repair
GO:0006284 base-excision repair

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Molecular Function
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Biological Process
External links
PDB RCSB:3w2y, PDBe:3w2y, PDBj:3w2y
PDBsum3w2y
PubMed
UniProtO26314|UREND_METTH DNA uridine endonuclease (Gene Name=MTH_212)

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