Structure of PDB 8df9 Chain B Binding Site BS03

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 W (length=18)

gcctgcacgaagtaagca

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): G517 K519 T520 S540 A541 S542 P619 R702 K703 R804 S805 S825
• Binding residue (residue number reindexed from 1): G516 K518 T519 S539 A540 S541 P618 R701 K702 R803 S804 S824

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