Structure of PDB 8df9 Chain B Binding Site BS06

Receptor Information
>8df9 Chain B (length=845) Species: 2320 (Methanopyrus kandleri) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
ALVYDAEFVGSEREFEEERETFLKGVKAYDGVLATRYLMERSSSAKNDEE
LLELHQNFILLTGSYACSIDPTEDRYQNVIVRGVNFDERVQRLSTGGSPA
RYAIVYRRGWRAIAKALDIDEEDVPAIEVRAVKRNPLQPALYRILVRYGR
VDLMPVTVDEVPPEMAGEFERLIERYDVPIDEKEERILEILRENPWTPHD
EIARRLGLSVSEVEGEKDPESSGIYSLWSRVVVNIEYDERTAKRHVKRRD
RLLEELYEHLEELSERYLRHPLTRRWIVEHKRDIMRRYLEQRIVECALKL
QDRYGIREDVALCLARAFDGSISMIATTPYRTLKDVCPDLTLEEAKSVNR
TLATLIDEHGLSPDAADELIEHFESIAGILATDLEEIERMYEEGRLSEEA
YRAAVEIQLAELTKKEGVGRKTAERLLRAFGNPERVKQLAREFEIEKLAS
VEGVGERVLRSLVPGYASLISIRGIDRERAERLLKKYGGYSKVREAGVEE
LREDGLTDAQIRELKGLKTLESIVGDLEKADELKRKYGSASAVRRLPVEE
LRELGFSDDEIAEIKGIPKKLREAFDLETAAELYERYGSLKEIGRRLSYD
DLLELGATPKAAAEIKGPEFKFLLNIEGVGPKLAERILEAVDYDLERLAS
LNPEELAEKVEGLGEELAERVVYAARERVESRRKSGRQERSEEEWKEWLE
RKVGEGRARRLIEYFGSAGEVGKLVENAEVSKLLEVPGIGDEAVARLVPG
YKTLRDAGLTPAEAERVLKRYGSVSKVQEGATPDELRELGLGDAKIARIL
GLRSLVNARLDVDTAYELARRYGSVSAAELRELGLSDRAIARIAG
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 chain8df9 Chain B Residue 903 [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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PDB8df9 Structures of topoisomerase V in complex with DNA reveal unusual DNA binding mode and novel relaxation mechanism.
Resolution3.24 Å
Binding residue
(original residue number in PDB)		T414 K416
Binding residue
(residue number reindexed from 1)		T413 K415
Annotation score4
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Biological Process
GO:0006281 DNA repair

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Molecular Function
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Biological Process
External links
PDB RCSB:8df9, PDBe:8df9, PDBj:8df9
PDBsum8df9
PubMed35969036
UniProtQ977W1

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