Structure of PDB 8kgn Chain B

Receptor sequence

>8kgnB (length=1180) Species: 10497 (African swine fever virus)

AFEISDFKEHAKKKSMWAGALNKVTISGLMGVFTEDEDLMALPIHRDHCP
ALLKIFDEIIVNATDHERACHNKTKKVTYIKISFDKGVFSCENDGPGIPI
AKHEQASLIAKRDVYVPEVASCHFLAGTNINKAKDCIKGGTNGVGLKLAM
VHSQWAILTTADGAQKYVQHINQRLDIIEPPTITPSREMFTRIELMPVYQ
ELGYAEPLSETEQADLSAWIYLRACQCAAYVGKGTTIYYNDKPCRTGSVM
ALAKMYTLLSAPNSTIHTATIKADAKPYSLHPLQVAAVVSPKFKKFEHVS
VINGVNCVKGEHVTFLKKTINEMVVKKFQQTIKDKNRKTTLRDSCSNIFI
VIVGSIPGIEWTGQRKDELSIAENVFKTHYSIPSSFLTSMTKSIVDILLQ
SISDKYTRARNAGGKRAQDCMLLAAEGDSALSLLRTGLTLGKSNPSGPSF
DFCGMISLGGVIMNACKKVTNITTDSGETIMVRNEQLTNNKVLQGIVQVL
GLDFNCHYKTQEERAKLRYGCIVACVDQDLDGCGKILGLLLAYFHLFWPQ
LIIHGFVKRLLTPLIRVYEKGKTMPVEFYYEQEFDAWAKKQTSLANHTVK
YYKGLAAHDTHEVKSMFKHFDNMVYTFTLDDSAKELFHIYFGGESELRKR
ELCTGVVPLTETQTQSIHSVRRIPCSLHLQVDTKAYKLDAIERQIPNFLD
GMTRARRKILAGGVKCFASNNRERKVFQFGGYVADHMFYHHGDMSLNTSI
IKAAQYYPGSSHLYPVFIGIGSFGSRHLGGKDAGSPRYISVQLASEFIKT
MFPAEDSWLLPYVFEDGQRAEPEYYVPVLPLAIMEYGANPSEGWKYTTWA
RQLEDILALVRAYVDKDNPKHELLHYAIKHKITILPLRPSNYNFKGHLKR
FGQYYYSYGTYVISEQRNIITITELPLRVPTVAYIESIKKSSNRMTFIEE
IIDYSSSETIEILVKLKPNSLNRIVEEFKETEEQDSIENFLRLRNCLHSH
LNFVKPKGGIIEFNTYYEILYAWLPYRRELYQKRLMREHAVLKLRIIMET
AIVRYINESAELNLSHYEDEKEASRILSEHGFPPLNHTLIISPEFASIEE
LNQKALQGCYTYILSLQARELLIAAKTRRVEKIKKMQARLDKVEQLLQES
PFPGASVWLEEIDAVEKAIIKGRNTQWKFH

3D structure

• PDB: 8kgn Structure of African swine fever virus topoisomerase II in complex with dsDNA
• Chain: B
• Resolution: 5.9 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	B	D440 S441 G472 V473 D543 R705 Q706 T715 H753 A850 N851 P852	D428 S429 G460 V461 D531 R693 Q694 T703 H741 A838 N839 P840
BS02	dna	B	V473 M475 N476 K547 L551 S657 R660 K661 Y800 P852 S853 E854 G855 W856 K857 R1004 H1010 H1012	V461 M463 N464 K535 L539 S645 R648 K649 Y788 P840 S841 E842 G843 W844 K845 R992 H998 H1000

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:8kgn, PDBe:8kgn, PDBj:8kgn
• PDBsum: 8kgn
• PubMed: 38816407
• UniProt: A0A2X0THW2