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P34184 (TOP1_BACPE) Reviewed, UniProtKB/Swiss-Prot

Last modified October 16, 2013. Version 83. 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:BpOF4_21279/BpOF4_21284
Encoded onPlasmid pBpOF4-01 Ref.1
OrganismBacillus pseudofirmus (strain OF4) [Complete proteome] [HAMAP]
Taxonomic identifier398511 [NCBI]
Taxonomic lineageBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillus

Protein attributes

Sequence length707 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.

Catalytic activity

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

Subunit structure

Monomer By similarity.

Sequence similarities

Belongs to the type IA topoisomerase family.

Contains 1 Toprim domain.

Caution

The sequence displayed is the result of a readthrough of the terminator UGA between codons for Tyr-288 and Leu-290. However, translational readthrough of UGA in this protein has not been proven.

Sequence caution

The sequence ADC52251.1 differs from that shown. Reason: Probable readthrough of the stop codon.

The sequence ADC52252.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.

The sequence CAA78484.1 differs from that shown. Reason: Probable readthrough of the stop codon.

The sequence CAA78485.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.

The sequence CAA78485.1 differs from that shown. Reason: Frameshift at position 525.

Ontologies

Keywords
   Coding sequence diversityRNA suppression of termination
   LigandATP-binding
DNA-binding
Nucleotide-binding
   Molecular functionIsomerase
Topoisomerase
   Technical termComplete proteome
Plasmid
Gene Ontology (GO)
   Biological_processDNA topological change

Inferred from electronic annotation. Source: InterPro

   Cellular_componentchromosome

Inferred from electronic annotation. Source: InterPro

   Molecular_functionATP binding

Inferred from electronic annotation. Source: UniProtKB-KW

DNA binding

Inferred from electronic annotation. Source: UniProtKB-KW

DNA topoisomerase type I activity

Inferred from electronic annotation. Source: UniProtKB-EC

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 706706DNA topoisomerase 1
PRO_0000145140

Regions

Domain1 – 140140Toprim
Region199 – 2046Interaction with DNA By similarity

Sites

Active site3231O-(5'-phospho-DNA)-tyrosine intermediate By similarity
Site481Interaction with DNA By similarity
Site1671Interaction with DNA By similarity
Site1711Interaction with DNA By similarity
Site3251Interaction with DNA By similarity
Site5291Interaction with DNA By similarity

Experimental info

Sequence conflict1261Q → H in CAA78484. Ref.2
Sequence conflict1421T → F in CAA78484. Ref.2
Sequence conflict2181I → L in CAA78484. Ref.2
Sequence conflict2541K → T in CAA78484. Ref.2
Sequence conflict2581A → D in CAA78484. Ref.2
Sequence conflict3521F → S in CAA78485. Ref.2
Sequence conflict4431W → R in CAA78485. Ref.2
Sequence conflict523 – 5242IT → TH in CAA78485. Ref.2
Sequence conflict5481V → A in CAA78485. Ref.2

Sequences

Sequence LengthMass (Da)Tools
P34184 [UniParc].

Last modified January 11, 2011. Version 3.
Checksum: 1E07919E5AD9AA00

FASTA70780,296
        10         20         30         40         50         60 
MYAILAEKPS AAKAYAQALN GKRQGRIYVA PPSSLLPEGA LICAAVGHIL EFLEPGELNE 

        70         80         90        100        110        120 
KYKSYSLDSL PIIIDLFQYK VVSDKKEVLQ RIKDTIFDKR VKTIILATDA AAEGEYIGRN 

       130        140        150        160        170        180 
ILYRLQCKKT IKRLWTSSMT ATSIQKAFSQ LKADAETLPL YYQAKARAES DYMIGLTLSR 

       190        200        210        220        230        240 
AYGILLKEQG IVPHNTTISL GRVQTPLLAE IVKRERLIEQ FTAENFWTVK ATFNNQGNVY 

       250        260        270        280        290        300 
EGEWFHEKEN RIFKEEQAEQ LCELVRNQSS TIMEMKEEMR TYQPPLLYXL STLQMDAGNA 

       310        320        330        340        350        360 
FGFKPAETLK YAQSLYDKGY LSYPRTQDER ITESDARELE NNIQFLSGHD TFGALFPLPV 

       370        380        390        400        410        420 
STLMNNKRYI GEVTDHHALL ITDKIPKDKD LSEDEKSIYH LVVKRILAAH YPDVAMSHKE 

       430        440        450        460        470        480 
IITKVMDRFT FRSKGKELLS KGWHHIIPPT NENDIMLPTL LKGSEGVVTD TLTTKSKTKP 

       490        500        510        520        530        540 
PNRYTSSSLI GFMKNAAQAI EDEDRKSISN LPLGTEATRA GLITLLESRK YIEWKKNKVY 

       550        560        570        580        590        600 
PTLLGITVVD SIKRGSVIKS PILTAKWDVK LNEIGASLYN HKDFIAHSKK LSSVLFEEVK 

       610        620        630        640        650        660 
TYSSTWNQNG VERIKSESIG ACLLCGSNVV LRKGKHGEFY GCSNYKDSGC TFNLPFKVLN 

       670        680        690        700 
KKLSKKQLME LLKNEKTDII KGFKWKDKTF NAPLVWNRED QKVQFGK 

« Hide

References

« Hide 'large scale' references
[1]"Genome of alkaliphilic Bacillus pseudofirmus OF4 reveals adaptations that support the ability to grow in an external pH range from 7.5 to 11.4."
Janto B., Ahmed A., Ito M., Liu J., Hicks D.B., Pagni S., Fackelmayer O.J., Smith T.A., Earl J., Elbourne L.D., Hassan K., Paulsen I.T., Kolsto A.B., Tourasse N.J., Ehrlich G.D., Boissy R., Ivey D.M., Li G. expand/collapse author list , Xue Y., Ma Y., Hu F.Z., Krulwich T.A.
Environ. Microbiol. 13:3289-3309(2011) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: OF4.
[2]"A 1.6 kb region of Bacillus firmus OF4 DNA encodes a homolog of Escherichia coli and yeast DNA topoisomerases and may contain a translational readthrough of UGA."
Ivey D.M., Cheng J., Krulwich T.A.
Nucleic Acids Res. 20:4928-4928(1992) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 27-706.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP001879 Genomic DNA. Translation: ADC52251.1. Sequence problems.
CP001879 Genomic DNA. Translation: ADC52252.1. Different initiation.
Z14112 Genomic DNA. Translation: CAA78484.1. Sequence problems.
Z14112 Genomic DNA. Translation: CAA78485.1. Sequence problems.
PIRS23866.
RefSeqYP_003429143.1. NC_013792.1.
YP_003429144.1. NC_013792.1.

3D structure databases

ProteinModelPortalP34184.
ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaADC52251; ADC52251; BpOF4_21279.
ADC52252; ADC52252; BpOF4_21284.
GeneID8769255.
8769256.
KEGGbpf:BpOF4_21279.
bpf:BpOF4_21284.
PATRIC31950839. VBIBacPse80461_4084.

Organism-specific databases

CMRSearch...

Enzyme and pathway databases

BioCycBPSE398511:GJI9-4279-MONOMER.
BPSE398511:GJI9-4280-MONOMER.

Family and domain databases

Gene3D1.10.290.10. 1 hit.
1.10.460.10. 2 hits.
3.40.50.140. 1 hit.
InterProIPR000380. Topo_IA.
IPR003601. Topo_IA_2.
IPR023406. Topo_IA_AS.
IPR013497. Topo_IA_cen.
IPR013824. Topo_IA_cen_sub1.
IPR013826. Topo_IA_cen_sub3.
IPR023405. Topo_IA_core_domain.
IPR003602. Topo_IA_DNA-bd.
IPR013498. Topo_IA_Znf.
IPR025589. Toprim_C_rpt.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERPTHR11390. PTHR11390. 1 hit.
PfamPF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
PF13342. Toprim_Crpt. 1 hit.
PF01396. zf-C4_Topoisom. 1 hit.
[Graphical view]
PRINTSPR00417. PRTPISMRASEI.
SMARTSM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view]
SUPFAMSSF56712. SSF56712. 1 hit.
PROSITEPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameTOP1_BACPE
AccessionPrimary (citable) accession number: P34184
Secondary accession number(s): D3G1M5, D3G1M6
Entry history
Integrated into UniProtKB/Swiss-Prot: February 1, 1994
Last sequence update: January 11, 2011
Last modified: October 16, 2013
This is version 83 of the entry and version 3 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