Structure of PDB 8kgm Chain A

Receptor sequence

>8kgmA (length=1181) Species: 10497 (African swine fever virus)

AFEISDFKEHAKKKSMWAGALNKVTISGLMGVFTEDEDLMALPIHRDHCP
ALLKIFDEIIVNATDHERACHNKTKKVTYIKISFDKGVFSCENDGPGIPI
AKHEQASLIAKRDVYVPEVASCHFLAGTNINKAKDCIKGGTNGVGLKLAM
VHSQWAILTTADGAQKYVQHINQRLDIIEPPTITPSREMFTRIELMPVYQ
ELGYAEPLSETEQADLSAWIYLRACQCAAYVGKGTTIYYNDKPCRTGSVM
ALAKMYTLLSAPNSTIHTATIKADAKPYSLHPLQVAAVVSPKFKKFEHVS
VINGVNCVKGEHVTFLKKTINEMVVKKFQQTIKDKNRKTTLRDSCSNIFI
VIVGSIPGIEWTGQRKDELSIAENVFKTHYSIPSSFLTSMTKSIVDILLQ
SVDVDKYTRARNAGGKRAQDCMLLAAEGDSALSLLRTGLTLGKSNPSGPS
FDFCGMISLGGVIMNACKKVTNITTDSGETIMVRNEQLTNNKVLQGIVQV
LGLDFNCHYKTQEERAKLRYGCIVACVDQDLDGCGKILGLLLAYFHLFWP
QLIIHGFVKRLLTPLIRVYEKGKTMPVEFYYEQEFDAWAKKQTSLANHTV
KYYKGLAAHDTHEVKSMFKHFDNMVYTFTLDDSAKELFHIYFGGESELRK
RELCTGVVPLTETQTQSIHSVRRIPCSLHLQVDTKAYKLDAIERQIPNFL
DGMTRARRKILAGGVKCFASNNRERKVFQFGGYVADHMFYHHGDMSLNTS
IIKAAQYYPGSSHLYPVFIGIGSFGSRHLGGKDAGSPRYISVQLASEFIK
TMFPAEDSWLLPYVFEDGQRAEPEYYVPVLPLAIMEYGANPSEGWKYTTW
ARQLEDILALVRAYVDKDNPKHELLHYAIKHKITILPLRPSNYNFKGHLK
RFGQYYYSYGTYVISEQRNIITITELPLRVPTVAYIESIKKSSNRMTFIE
EIIDYSSSETIEILVKLKPNSLNRIVEEFKETEEQDSIENFLRLRNCLHS
HLNFVKPKGGIIEFNTYYEILYAWLPYRRELYQKRLMREHAVLKLRIIME
TAIVRYINESAELNLSHYEDEKEASRILSEHGFPPLNHTLIISPEFASIE
ELNQKALQGCYTYILSLQARELLIAAKTRRVEKIKKMQARLDKVEQLLQE
SPFPGASVWLEEIDAVEKAIIKGRNTQWKFH

3D structure

• PDB: 8kgm Structure of African swine fever virus topoisomerase II in complex with dsDNA
• Chain: A
• Resolution: 4.8 Å

Enzymatic activity

• Enzyme Commision number: 5.6.2.2: DNA topoisomerase (ATP-hydrolyzing).

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	dna	A	V473 M475 N476 K547 R660 K661 Q706 Y800 P852 S853 E854 G855 W856 K857 H1010 H1012	V462 M464 N465 K536 R649 K650 Q695 Y789 P841 S842 E843 G844 W845 K846 H999 H1001
BS02	dna	A	G472 V473 N496 D543 R705 Q706 T715 R718 H753 A850 N851 P852	G461 V462 N485 D532 R694 Q695 T704 R707 H742 A839 N840 P841

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0003677 DNA binding
• GO:0003918 DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity
• GO:0005524 ATP binding
• GO:0016853 isomerase activity
• GO:0046872 metal ion binding

Biological Process

• GO:0000819 sister chromatid segregation
• GO:0006259 DNA metabolic process
• GO:0006265 DNA topological change

Cellular Component

• GO:0005737 cytoplasm

External links

• PDB: RCSB:8kgm, PDBe:8kgm, PDBj:8kgm
• PDBsum: 8kgm
• PubMed: 38816407
• UniProt: A0A2X0THW2