5.6.2.1: DNA topoisomerase

This is an abbreviated version!
For detailed information about DNA topoisomerase, go to the full flat file.

Reaction

ATP-independent breakage of single-stranded DNA, followed by passage and rejoining =

Synonyms

ATP-independent type I topoisomerase, AtTop1, bcTopo I, bcTopo IIIbeta, bi-subunit topoisomerase I, Bi-subunit topoisomerase IB, Ca-Top1, CrTop1, Dam DNA topoisomerase III, Deoxiribonucleate topoisomerase, Deoxiribonucleic topoisomerase, DNA Top IB, DNA topo I, DNA topoisomerase, DNA topoisomerase 1, DNA topoisomerase I, DNA topoisomerase I alpha, DNA topoisomerase I-B, DNA topoisomerase IB, DNA topoisomerase III, DNA topoisomerase IIIalpha, DNA topoisomerase type I, EC 5.99.1.2, EcTOP, ETOP, HssTopoI, HsTop1, hTop1p, hTopI, hTopo, htopo I, hTopo IIIalpha, hTopoI, human DNA topoisomerase I, human Top1, human topo I, human topoisomerase I, Isomerase, deoxiribonucleate topo-, Late protein H6, LdTop1, LdTOP1L, LdTOP1LS, LdTOP1S, LdTopIIIbeta, MimiTopIB, MsTopA, MtbTopA, mTopoI, MtTOP1, MttopoI, Nicking-closing enzyme, OjTop1, OlTop1, omega-Protein, OpTop1, PfTopI, PfTopoI, Poxviridae topoisomerase IB, Relaxing enzyme, Reverse gyrase, SiRe_1176, SsTop3, Swivelase, top I, Top1, TOP1alpha, TOP1mt, Top1p, TopA, TopI, TopIB, topo 1, Topo I, topo IB, topo V, topoI, Topoisomerase, topoisomerase 1, topoisomerase 1alpha, Topoisomerase I, topoisomerase I homolog, topoisomerase IB, topoisomerase III, topoisomerase IIIalpha, topoisomerase IIIbeta, topoisomerase IV, topoisomerase V, topoisomerase-I, topoIV, TopR1, TpI, Type I DNA topoisomerase, type I topoisomerase, type IA DNA topoisomerase, type IA topoisomerase, type IB topoisomerase, type IB topoisomerase V, Untwisting enzyme, Vaccinia DNA topoisomerase I, variola topoisomerase IB, vTopo, yeast DNA topoisomerase I, yeastTop1, YpTOP, YrdD, YTOP

ECTree

     5 Isomerases

         5.6 Isomerases altering macromolecular conformation

             5.6.2 Enzymes altering nucleic acid conformation

                5.6.2.1 DNA topoisomerase

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Results	in table
28	Activating Compound
82460	AA Sequence
43	Application
1	CAS Registry Number
71	Cloned(Commentary)
4	Cofactor
14	Crystallization (Commentary)
10906	Disease/ Diagnostics
3	Expression
58	General Information
2	General Stability
208	IC50 Value
1185	Inhibitors
1	Ki Value [mM]
5	KM Value [mM]
79	Localization
131	Metals/Ions
82	Molecular Weight [Da]
71	Natural Substrates/ Products (Substrates)
475	Organism
56	pH Optimum
9	pH Range
1	pH Stability
3	pI Value
1	Posttranslational Modification
261	Protein Variants
93	Purification (Commentary)
16	Reaction
2	Reaction Type
360	Reference
355	Source Tissue
16	Specific Activity [micromol/min/mg]
7	Storage Stability
347	Substrates and Products (Substrate)
69	Subunits
427	Synonyms
1	Systematic Name
61	Temperature Optimum [°C]
8	Temperature Range [°C]
17	Temperature Stability [°C]
1	Turnover Number [1/s]

Molecular Weight

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Molecular Weight on EC 5.6.2.1 - DNA topoisomerase

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MOLECULAR WEIGHT

ORGANISM

UNIPROT

COMMENTARY

LITERATURE

100000

3 entries

102000

4 entries

104000

Plasmodium falciparum

-

-

678377

105000

Escherichia coli

-

-

3813

108000

Desulfurococcus amylolyticus

-

gel filtration

727807

110000

2 entries

120000

Micrococcus luteus

-

-

3813

135000

Drosophila sp. (in: flies)

-

x * 135000, SDS-PAGE

3792

140000

Escherichia coli

-

EE dimer

680664

145000

Bos taurus

-

gel filtration, glycerol density gradient centrifugation, weakly associated dimer exists at high ionic strength

3803

150000

Geobacillus stearothermophilus

-

4 forms of DNA topoisomerase I with MW 80000, MW 100000, MW 110000, and MW 150000, PAGE, gel filtration

3798

154000

Escherichia coli

-

CE dimer

680664

168000

Escherichia coli

-

CC dimer

680664

200000

Homo sapiens

-

gel filtration, dimeric form

3817

235000

Lentinula edodes

-

gel filtration

3802

28000

2 entries

29000

2 entries

30000

2 entries

31000 - 33000

Vaccinia virus

-

glycerol density gradient centrifugation, gel filtration

3805, 3831

31400

Leishmania sp.

-

GST-LdTOPIS 215-262

678080

31800

Leishmania sp.

-

GST-LdTOPIS 210-255

678080

32000

2 entries

33000

2 entries

34500

Leishmania sp.

-

GST-LdTOPIS 201-262

678080

36000

Trypanosoma brucei

-

x * 90000 + x * 36000, the large subunit contains the DNA-binding domain, the small subunit contains the catalytic domain, each subunit is essential for trypanosome survival

662799

37000

Acanthamoeba polyphaga Mimivirus

-

SDS-PAGE

681673

46000

Leishmania sp.

-

GST-LdTOPIS 80-262

678080

48700

Leishmania sp.

-

6xHis-LdTOPIL 39-456

678080

51000

Leishmania sp.

-

6xHis-LdTOPIL 1-435

678080

52000

Leishmania sp.

-

GST-LdTOPIS 1-255

678080

53300

Leishmania sp.

-

GST-LdTOPIS 1-245

678080

53500

Leishmania sp.

-

6xHis-LdTOPIL1-456

678080

56000

Leishmania sp.

-

GST-LdTOPIS

678080

61700

Leishmania sp.

-

6xHis-LdTOPIL 99-635

678080

62000

Gallus gallus

-

sucrose density gradient centrifugation

3791

63000

Artemia franciscana

-

1 * 63000, SDS-PAGE. The purified 63000 MW protein is a proteolytic fragment of a protein with a molecular mass of 100000

3816

64000

Bos taurus

-

gel filtration, glycerol density gradient centrifugation, monomeric form exists at low ionic strength

3803

65000

2 entries

65000 - 70000

Xenopus laevis

-

-

3813

68000

Gallus gallus

-

sucrose density gradient sedimentation

3824

68700

Leishmania sp.

-

6xHis-LdTOPIL 39-635

678080

70000

2 entries

71500

Lentinula edodes

-

x * 71500, SDS-PAGE

3802

73000

5 entries

76000

Saccharomyces cerevisiae

-

sucrose density gradient centrifugation

3793

79000

2 entries

80000

3 entries

82000

Bacillus cereus

Q81IH1

-

681990

84000

Escherichia coli

-

C monomer

680664

90000

2 entries

91000

2 entries

97000

2 entries

97410

Escherichia coli

-

-

3815

98000

2 entries

99353

Mycobacterium tuberculosis

-

x * 99353, calculation from nucleotide sequence

3846

additional information

2 entries

100000

Geobacillus stearothermophilus

-

4 forms of DNA topoisomerase I with MW 80000, MW 100000, MW 110000, and MW 150000, PAGE, gel filtration

3798

100000

Homo sapiens

-

glycerol density gradient centrifugation, monomeric form

3817

100000

Gallus gallus

-

1 * 100000, SDS-PAGE

3824

102000

Leishmania donovani

-

Leishmania bisubunit topoisomerase I fusion construct, LdTOPIL and LdTOPIS and the deduced amino acid sequences of the fusion regions

679762

102000

Leishmania donovani

-

point mutations generate at the His453 position of the LdTOPIL-fus-S gene to H453A and H453Q

679762

102000

Leishmania donovani

-

reverse fusion construct of Leishmania bisubunit topoisomerase I, LdTOPIS and LdTOPIL and the deduced amino acid sequences of the fusion regions

679762

102000

Mus musculus

-

1 * 102000, enzyme form p102, SDS-PAGE. The two enzyme forms P98 and p102 are structurally related

3797

110000

Geobacillus stearothermophilus

-

4 forms of DNA topoisomerase I with MW 80000, MW 100000, MW 110000, and MW 150000, PAGE, gel filtration

3798

110000

Escherichia coli

-

1 * 110000, denaturing PAGE

3811

28000

Leishmania donovani

-

small subunit LdTOPIB, on chromosome 4, encoding for a 262-amino acid polypeptide. The small subunit contains SKXXY motif placed at the C-terminal domain of all type I DNA topoisomerases, which conserves the tyrosine residue that plays a role in DNA cleavage

678377

28000

Leishmania donovani

-

Two different subunits, small protein of 28000 (LdTop1S)

678493

29000

Leishmania donovani

-

smaller catalytic subunit with the active site residue

679762

29000

Leishmania donovani

-

1 * 29000 + 1 * 73000, LdTOP1L (large subunit) and LdTOP1S (small subunit) form a direct 1:1 heterodimer complex through protein-protein interaction, SDS-PAGE

661734

30000

Vaccinia virus

-

1 * 30000, SDS-PAGE

3831

30000

Nicotiana tabacum

-

x * 30000, SDS-PAGE, may exist as a multimeric protein in the native state

3827

32000

Variola virus

-

poxviridae topoisomerase smallest known topoisomerase, maintains higher levels of covalent enzyme-cleaved DNA intermediates during its catalytic cycle than the eukaryotic type IB enzyme. Poxviridae topoisomerase is refractory to the drug camptothecin. Poxviridae topoisomerase IB is highly sequence specific. Crystal structure of the non-covalent variola topoisomerase IB–DNA complex and that of the covalent enzyme–DNA cleavage complex are known. These structures provide an explanation for some of the unique features of Poxviridae topoisomerase IB. Crystal structures of the variola and human topoisomerase IB-DNA cleavage complexes compared

681975

32000

Vaccinia virus

-

x * 32000, SDS-PAGE

3804

33000

Leishmania sp.

-

GST-LdTOPIS 210-262

678080

33000

Vaccinia virus

-

1 * 33000, SDS-PAGE

3805

65000

Gallus gallus

-

glycerol density gradient centrifugation

3791

65000

Trypanosoma cruzi

-

1 * 65000, SDS-PAGE

3794

70000

Homo sapiens

Q969P6

Western blot

690902

70000

Escherichia coli

-

E monomer

680664

73000

Leishmania sp.

-

6xHis-LdTOPIL

678080

73000

Leishmania donovani

-

full-length larger subunit as the core DNA-binding subunit with the conserved catalytic His at position 453

679762

73000

Leishmania donovani

-

large subunit LdTOPIA, on chromosome 34, encoding for a 636-amino acid polypeptide

678377

73000

Leishmania donovani

-

Two different subunits, large protein of 73000 (LdTop1L)

678493

73000

Leishmania donovani

-

1 * 29000 + 1 * 73000, LdTOP1L (large subunit) and LdTOP1S (small subunit) form a direct 1:1 heterodimer complex through protein-protein interaction, SDS-PAGE

661734

79000

Crithidia fasciculata

-

glycerol density gradient sedimentation

3821

79000

Leishmania donovani

-

N-terminal truncated small subunit (amino acids 211–262) fuse to intact large subunit to generate an ORF, LdTOPIL-fus-D(1–210)S

679762

80000

Oryza sativa

-

gel filtration

3829

80000

Brassica oleracea

-

gel filtration, the purified protein represents a proteolytic fragment of a larger protein

3818

80000

Geobacillus stearothermophilus

-

4 forms of DNA topoisomerase I with MW 80000, MW 100000, MW 110000, and MW 150000, PAGE, gel filtration

3798

90000

Saccharomyces cerevisiae

-

1 * 90000, SDS-PAGE

3808

90000

Trypanosoma brucei

-

x * 90000 + x * 36000, the large subunit contains the DNA-binding domain, the small subunit contains the catalytic domain, each subunit is essential for trypanosome survival

662799

91000

Mammalia

-

-

678377

91000

Homo sapiens

-

-

678377

97000

Homo sapiens

-

-

678207

97000

Escherichia coli

-

SDS–PAGE

682161

98000

Saccharomyces cerevisiae

-

gel filtration

3808

98000

Mus musculus

-

1 * 98000, enzyme form p98, SDS-PAGE. The two enzyme form P98 and p102 are structurally related

3797

additional information

eukaryota

-

overview

3813

additional information

Leishmania sp.

-

large subunit (LdTop1L), which contains the non-conserved N-terminal end and a phylogenetically conserved core domain, and of a small subunit (LdTop1S) which harbours the C-terminal region with a characteristic tyrosine residue in the active site

678080