Structure of PDB 8df9 Chain B Binding Site BS04

Receptor Information

>8df9 Chain B (length=845) Species: 2320 (Methanopyrus kandleri)

ALVYDAEFVGSEREFEEERETFLKGVKAYDGVLATRYLMERSSSAKNDEE
LLELHQNFILLTGSYACSIDPTEDRYQNVIVRGVNFDERVQRLSTGGSPA
RYAIVYRRGWRAIAKALDIDEEDVPAIEVRAVKRNPLQPALYRILVRYGR
VDLMPVTVDEVPPEMAGEFERLIERYDVPIDEKEERILEILRENPWTPHD
EIARRLGLSVSEVEGEKDPESSGIYSLWSRVVVNIEYDERTAKRHVKRRD
RLLEELYEHLEELSERYLRHPLTRRWIVEHKRDIMRRYLEQRIVECALKL
QDRYGIREDVALCLARAFDGSISMIATTPYRTLKDVCPDLTLEEAKSVNR
TLATLIDEHGLSPDAADELIEHFESIAGILATDLEEIERMYEEGRLSEEA
YRAAVEIQLAELTKKEGVGRKTAERLLRAFGNPERVKQLAREFEIEKLAS
VEGVGERVLRSLVPGYASLISIRGIDRERAERLLKKYGGYSKVREAGVEE
LREDGLTDAQIRELKGLKTLESIVGDLEKADELKRKYGSASAVRRLPVEE
LRELGFSDDEIAEIKGIPKKLREAFDLETAAELYERYGSLKEIGRRLSYD
DLLELGATPKAAAEIKGPEFKFLLNIEGVGPKLAERILEAVDYDLERLAS
LNPEELAEKVEGLGEELAERVVYAARERVESRRKSGRQERSEEEWKEWLE
RKVGEGRARRLIEYFGSAGEVGKLVENAEVSKLLEVPGIGDEAVARLVPG
YKTLRDAGLTPAEAERVLKRYGSVSKVQEGATPDELRELGLGDAKIARIL
GLRSLVNARLDVDTAYELARRYGSVSAAELRELGLSDRAIARIAG

Ligand information

>8df9 Chain X (length=20)

tgcttacttcgtgcaggcat

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8df9 Structures of topoisomerase V in complex with DNA reveal unusual DNA binding mode and novel relaxation mechanism.
• Resolution: 3.24 Å
• Binding residue (original residue number in PDB): S469 Y491 P569 S590 L591 G751 T754 S774 V775 S776 G852
• Binding residue (residue number reindexed from 1): S468 Y490 P568 S589 L590 G750 T753 S773 V774 S775 G845

Gene Ontology

Molecular Function

• GO:0003677 DNA binding

Biological Process

• GO:0006281 DNA repair

External links

• PDB: RCSB:8df9, PDBe:8df9, PDBj:8df9
• PDBsum: 8df9
• PubMed: 35969036
• UniProt: Q977W1