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Q9KA23 (TOP1_BACHD) Reviewed, UniProtKB/Swiss-Prot

Last modified February 19, 2014. Version 97. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
DNA topoisomerase 1

EC=5.99.1.2
Alternative name(s):
DNA topoisomerase I
Omega-protein
Relaxing enzyme
Swivelase
Untwisting enzyme
Gene names
Name:topA
Ordered Locus Names:BH2467
OrganismBacillus halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125) [Complete proteome] [HAMAP]
Taxonomic identifier272558 [NCBI]
Taxonomic lineageBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillus

Protein attributes

Sequence length690 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

Releases the supercoiling and torsional tension of DNA, which is introduced during the DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand, thus removing DNA supercoils. Finally, in the religation step, the DNA 3'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone By similarity. HAMAP-Rule MF_00952

Catalytic activity

ATP-independent breakage of single-stranded DNA, followed by passage and rejoining. HAMAP-Rule MF_00952

Cofactor

Magnesium. Binds two Mg2+ per subunit By similarity. HAMAP-Rule MF_00952

Subunit structure

Monomer By similarity. HAMAP-Rule MF_00952

Sequence similarities

Belongs to the type IA topoisomerase family.

Contains 1 Toprim domain.

Ontologies

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 690690DNA topoisomerase 1 HAMAP-Rule MF_00952
PRO_0000145141

Regions

Domain3 – 121119Toprim
Zinc finger579 – 60527C4-type 1 HAMAP-Rule MF_00952
Zinc finger619 – 64729C4-type 2 HAMAP-Rule MF_00952
Zinc finger660 – 68324C4-type 3 HAMAP-Rule MF_00952
Region163 – 1686Interaction with DNA By similarity

Sites

Active site2981O-(5'-phospho-DNA)-tyrosine intermediate By similarity
Metal binding91Magnesium 1; catalytic By similarity
Metal binding821Magnesium 1; catalytic By similarity
Metal binding821Magnesium 2 By similarity
Metal binding841Magnesium 2 By similarity
Site331Interaction with DNA By similarity
Site1391Interaction with DNA By similarity
Site1401Interaction with DNA By similarity
Site1431Interaction with DNA By similarity
Site1481Interaction with DNA By similarity
Site1551Interaction with DNA By similarity
Site3001Interaction with DNA By similarity
Site4901Interaction with DNA By similarity

Sequences

Sequence LengthMass (Da)Tools
Q9KA23 [UniParc].

Last modified October 1, 2000. Version 1.
Checksum: EE3E9EE0B5546256

FASTA69078,911
        10         20         30         40         50         60 
MADYLVIVES PAKAKTIGKY LGKKYTVKAS MGHVRDLPKS QMGVDIEDEY SPRYITIRGK 

        70         80         90        100        110        120 
GPVLKELKSA AKKVKRVYLA ADPDREGEAI AWHLAHSLDI DETSECRVVF NEITKQAIKD 

       130        140        150        160        170        180 
AFKSPRPINM DLVDAQQARR VLDRLVGYNI SPLLWKKVKK GLSAGRVQSV AVKMIIDREK 

       190        200        210        220        230        240 
EIQAFEPEEY WSIQGTFALD GEPFEAKFYG TNGKKVELKS EDDVNNVLAK LKGDQFHVDS 

       250        260        270        280        290        300 
VQKKERKRNP VSPFTTSSLQ QEAARKLNFR AKKTMMLAQQ LYEGIDLGKE GTVGLITYMR 

       310        320        330        340        350        360 
TDSTRISDTA KAETKEYIES KFGKEYAQNG TKAVKKDKKS QDAHEAIRPT SVERDPKSLK 

       370        380        390        400        410        420 
EYLSRDQLRL YKLIWERLVA SQMAPAIMDT MTVDLSNEGV LFRATGSKVK FPGFMKVYIE 

       430        440        450        460        470        480 
GNDEGKKEED RLLPNLQEGQ TVTKEEIEPS QHFTQPPPRY TEARLVKTME ELGIGRPSTY 

       490        500        510        520        530        540 
APTLDTIQKR GYVALDERRF VPTELGEIVL ELMTEFFPEI LDVEFTAKME DDLDSIEEGK 

       550        560        570        580        590        600 
QQWIKIIDDF YKGFEERLKV AEEEMKEVEI KDEPTGEMCE KCGHEMVYKM GRYGKFMACS 

       610        620        630        640        650        660 
NFPDCRNTKP IVKEIGVKCP KCEKGEIVER KSKKRRVFYG CNQYPECDFV SWDKPIARSC 

       670        680        690 
PKCSSYLVEK RTKKQVQVQC SSCDYKEEAN 

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References

[1]"Complete genome sequence of the alkaliphilic bacterium Bacillus halodurans and genomic sequence comparison with Bacillus subtilis."
Takami H., Nakasone K., Takaki Y., Maeno G., Sasaki R., Masui N., Fuji F., Hirama C., Nakamura Y., Ogasawara N., Kuhara S., Horikoshi K.
Nucleic Acids Res. 28:4317-4331(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
BA000004 Genomic DNA. Translation: BAB06186.1.
PIRC83958.
RefSeqNP_243333.1. NC_002570.2.

3D structure databases

ProteinModelPortalQ9KA23.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING272558.BH2467.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaBAB06186; BAB06186; BAB06186.
GeneID891541.
KEGGbha:BH2467.
PATRIC18942124. VBIBacHal18977_2575.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG0551.
HOGENOMHOG000004018.
KOK03168.
OMAMVYKMGR.
OrthoDBEOG6S7XQ9.
ProtClustDBPRK05582.

Enzyme and pathway databases

BioCycBHAL272558:GJC5-2551-MONOMER.

Family and domain databases

Gene3D1.10.460.10. 3 hits.
2.70.20.10. 2 hits.
3.40.50.140. 1 hit.
HAMAPMF_00952. Topoisom_1_prok.
InterProIPR000380. Topo_IA.
IPR003601. Topo_IA_2.
IPR023406. Topo_IA_AS.
IPR013497. Topo_IA_cen.
IPR013824. Topo_IA_cen_sub1.
IPR013825. Topo_IA_cen_sub2.
IPR023405. Topo_IA_core_domain.
IPR003602. Topo_IA_DNA-bd.
IPR013498. Topo_IA_Znf.
IPR005733. TopoI_bac-type.
IPR028612. Topoisom_1_IA.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERPTHR11390. PTHR11390. 1 hit.
PfamPF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
PF01396. zf-C4_Topoisom. 2 hits.
[Graphical view]
PRINTSPR00417. PRTPISMRASEI.
SMARTSM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view]
SUPFAMSSF56712. SSF56712. 1 hit.
TIGRFAMsTIGR01051. topA_bact. 1 hit.
PROSITEPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameTOP1_BACHD
AccessionPrimary (citable) accession number: Q9KA23
Entry history
Integrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: October 1, 2000
Last modified: February 19, 2014
This is version 97 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families