DB code: D00452

CATH domain 1.10.10.10 : Arc Repressor Mutant, subunit A Catalytic domain
3.40.1360.10 : Dna Topoisomerase Vi A Subunit; Chain
E.C. 5.99.1.3
CSA
M-CSA
MACiE

CATH domain Related DB codes (homologues)
1.10.10.10 : Arc Repressor Mutant, subunit A D00510 D00077 D00517 T00055 T00113

Uniprot Enzyme Name
UniprotKB Protein name Synonyms RefSeq Pfam
Q57815 Type II DNA topoisomerase VI subunit A
EC 5.99.1.3
NP_247343.1 (Protein)
NC_000909.1 (DNA/RNA sequence)
PF04406 (TP6A_N)
[Graphical View]

KEGG enzyme name
DNA topoisomerase (ATP-hydrolysing)
type II DNA topoisomerase
DNA-gyrase
deoxyribonucleate topoisomerase
deoxyribonucleic topoisomerase
topoisomerase
DNA topoisomerase II

UniprotKB: Accession Number Entry name Activity Subunit Subcellular location Cofactor
Q57815 TOP6A_METJA ATP-dependent breakage, passage and rejoining of double-stranded DNA. Heterotetramer of two subunits A and two subunits B. Binds 1 magnesium ion per subunit.

KEGG Pathways
Map code Pathways E.C.

Compound table
Cofactors Substrates Products Intermediates
KEGG-id C00305 C00434 C00002 C00434 C00008 C00009
E.C.
Compound Magnesium Double-stranded DNA ATP Double-stranded DNA ADP Orthophosphate
Type divalent metal (Ca2+, Mg2+) nucleic acids amine group,nucleotide nucleic acids amine group,nucleotide phosphate group/phosphate ion
ChEBI 18420
15422
16761
26078
PubChem 888
5957
6022
1004
22486802
1d3yA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound Unbound Unbound
1d3yB01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound Unbound Unbound
1d3yA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Bound:_MG Unbound Unbound Unbound Unbound Unbound
1d3yB02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Bound:_MG Unbound Unbound Unbound Unbound Unbound

Reference for Active-site residues
resource references E.C.
Swiss-prot;Q57815

Active-site residues
PDB Catalytic residues Cofactor-binding residues Modified residues Main-chain involved in catalysis Comment
1d3yA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain TYR 103
1d3yB01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain TYR 103
1d3yA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain GLU 197;ASP 249(Magnesium binding)
1d3yB02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain GLU 197;ASP 249(Magnesium binding)

References for Catalytic Mechanism
References Sections No. of steps in catalysis

References
[1]
Resource
Comments
Medline ID
PubMed ID 9519293
Journal Curr Opin Struct Biol
Year 1998
Volume 8
Pages 26-32
Authors Berger JM
Title Type II DNA topoisomerases.
Related PDB
Related UniProtKB
[2]
Resource
Comments
Medline ID
PubMed ID 9801313
Journal Nucleic Acids Res
Year 1998
Volume 26
Pages 5157-62
Authors Buhler C, Gadelle D, Forterre P, Wang JC, Bergerat A
Title Reconstitution of DNA topoisomerase VI of the thermophilic archaeon Sulfolobus shibatae from subunits separately overexpressed in Escherichia coli.
Related PDB
Related UniProtKB
[3]
Resource
Comments X-ray crystallography
Medline ID
PubMed ID 10545127
Journal EMBO J
Year 1999
Volume 18
Pages 6177-88
Authors Nichols MD, DeAngelis K, Keck JL, Berger JM
Title Structure and function of an archaeal topoisomerase VI subunit with homology to the meiotic recombination factor Spo11.
Related PDB 1d3y
Related UniProtKB
[4]
Resource
Comments
Medline ID
PubMed ID 11809802
Journal Mol Cell Biol
Year 2002
Volume 22
Pages 1106-15
Authors Diaz RL, Alcid AD, Berger JM, Keeney S
Title Identification of residues in yeast Spo11p critical for meiotic DNA double-strand break formation.
Related PDB
Related UniProtKB
[5]
Resource
Comments
Medline ID
PubMed ID 12596227
Journal Bioessays
Year 2003
Volume 25
Pages 232-42
Authors Gadelle D, Filee J, Buhler C, Forterre P
Title Phylogenomics of type II DNA topoisomerases.
Related PDB
Related UniProtKB
[6]
Resource
Comments
Medline ID
PubMed ID 12505993
Journal EMBO J
Year 2003
Volume 22
Pages 151-63
Authors Corbett KD, Berger JM
Title Structure of the topoisomerase VI-B subunit: implications for type II topoisomerase mechanism and evolution.
Related PDB
Related UniProtKB

Comments
Topoisomerase Type VI is an archaeal topoisomerase type II.

Created Updated
2004-04-22 2009-02-26