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A4SQD3

- A4SQD3_AERS4

UniProt

A4SQD3 - A4SQD3_AERS4

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Protein

DNA topoisomerase 1

Gene
topA, ASA_3111
Organism
Aeromonas salmonicida (strain A449)
Status
Unreviewed - Annotation score: 3 out of 5 - Protein inferred from homologyi

Functioni

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.UniRule annotationSAAS annotations

Catalytic activityi

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

Cofactori

Magnesium. Binds two Mg2+ per subunit By similarity.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi9 – 91Magnesium 1; catalytic By similarityUniRule annotation
Sitei33 – 331Interaction with DNA By similarityUniRule annotation
Metal bindingi114 – 1141Magnesium 1; catalytic By similarityUniRule annotation
Metal bindingi114 – 1141Magnesium 2 By similarityUniRule annotation
Metal bindingi116 – 1161Magnesium 2 By similarityUniRule annotation
Sitei171 – 1711Interaction with DNA By similarityUniRule annotation
Sitei172 – 1721Interaction with DNA By similarityUniRule annotation
Sitei175 – 1751Interaction with DNA By similarityUniRule annotation
Sitei180 – 1801Interaction with DNA By similarityUniRule annotation
Sitei187 – 1871Interaction with DNA By similarityUniRule annotation
Active sitei322 – 3221O-(5'-phospho-DNA)-tyrosine intermediate By similarityUniRule annotation
Sitei324 – 3241Interaction with DNA By similarityUniRule annotation
Sitei510 – 5101Interaction with DNA By similarityUniRule annotation

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-KW
  2. DNA binding Source: UniProtKB-KW
  3. DNA topoisomerase type I activity Source: UniProtKB-HAMAP
  4. DNA topoisomerase type II (ATP-hydrolyzing) activity Source: InterPro
  5. magnesium ion binding Source: UniProtKB-HAMAP

GO - Biological processi

  1. DNA topological change Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Isomerase, TopoisomeraseUniRule annotationSAAS annotations

Keywords - Ligandi

ATP-bindingUniRule annotation, DNA-bindingUniRule annotationSAAS annotations, MagnesiumUniRule annotationSAAS annotations, Metal-bindingUniRule annotationSAAS annotations, Nucleotide-binding

Enzyme and pathway databases

BioCyciASAL382245:GJJN-3098-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA topoisomerase 1UniRule annotation (EC:5.99.1.2UniRule annotation)
Alternative name(s):
DNA topoisomerase I
Gene namesi
Name:topAUniRule annotationImported
Ordered Locus Names:ASA_3111Imported
OrganismiAeromonas salmonicida (strain A449)Imported
Taxonomic identifieri382245 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaAeromonadalesAeromonadaceaeAeromonas
ProteomesiUP000000225: Chromosome

Subcellular locationi

GO - Cellular componenti

  1. chromosome Source: InterPro
Complete GO annotation...

Interactioni

Subunit structurei

Monomer By similarity.UniRule annotation

Protein-protein interaction databases

STRINGi382245.ASA_3111.

Structurei

3D structure databases

ProteinModelPortaliA4SQD3.
SMRiA4SQD3. Positions 2-595, 748-865.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini3 – 145143Toprim By similarityUniRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni195 – 2006Interaction with DNA By similarityUniRule annotation

Sequence similaritiesi

Contains 1 Toprim domain.UniRule annotation
Contains Toprim domain.SAAS annotations

Phylogenomic databases

eggNOGiCOG0551.
HOGENOMiHOG000004018.
KOiK03168.
OMAiVVECDKC.
OrthoDBiEOG6S7XQ9.

Family and domain databases

Gene3Di1.10.460.10. 2 hits.
2.70.20.10. 2 hits.
3.40.50.140. 1 hit.
HAMAPiMF_00952. Topoisom_1_prok.
InterProiIPR000380. 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.
IPR013263. TopoI_Znr_bac.
IPR028612. Topoisom_1_IA.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 1 hit.
PfamiPF08272. Topo_Zn_Ribbon. 2 hits.
PF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
PF01396. zf-C4_Topoisom. 2 hits.
[Graphical view]
PRINTSiPR00417. PRTPISMRASEI.
SMARTiSM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view]
SUPFAMiSSF56712. SSF56712. 1 hit.
TIGRFAMsiTIGR01051. topA_bact. 1 hit.
PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

A4SQD3-1 [UniParc]FASTAAdd to Basket

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MGKSLVIVES PAKAKTINKY LGKDYVVKSS VGHVRDLPTS GSGSNEPKKP    50
VIRGIKLSES EKAAKDRNAL FSRMGINPTA GWQANYQILP GKEKVVSELQ 100
SLAAKADTIY LATDLDREGE AIAWHLREII GGDDSRYKRV VFNEITKTAI 150
QEAFAQPSEL NIHRVNAQQA RRFLDRVVGY MVSPLLWKKL ARGLSAGRVQ 200
SVAVRLIVDK EREIKAFVPV EFWDLNADLL TGDKSDLRME VVSRNGADFK 250
PVTQAETFAA VAALEGVDYK VVNREDKPTG SKPSAPFITS TLQQAASTRL 300
SFGVKKTMMM AQRLYEAGYI TYMRTDSTNL SKEAVEALRE YIGEQYGAAY 350
LPAEPNLYGS KAGAQEAHEA IRPSSVLVTA EMLEGMEPDA MRLYDLIWRQ 400
FVACQMTPAQ YDSSTLTVKA GEFELKARGR TLRFAGWTKA LPPMGRKGED 450
SQLPAVTVGE VLKLIKLDPR QHFTKPPARF TEAALVRELE KRGIGRPSTY 500
ASIISTIVDR GYVRVESRRF FAEKMGEIVT DRLVENFVEL MNYEFTAKME 550
DKLDGIAEGS LEWKKVLDAF YEEFTQELAK ADRDAEEGGM RANQMVLTDI 600
DCPDCGRKMG IRTATTGVFL GCSGYALPPK ERCKKTINLV SADEFVSATD 650
GDEAETEALR AKHRCGVCGT AMDAYIIDDS RKLHVCGRNP DCDGYEIEKG 700
QFKLKGYEGP SIECDRCGSE MQLKNGRFGK YMGCTNETCK NTRKILKNGD 750
IAPPKEDPVP LPELKCTQSD AYFVLRDGAA GLFLAASNFP KSRETRAPLV 800
EELKRFKERL SPKHQYLADA PASDPDGNAS IVRFSRKTKE QYVMTEVNGK 850
ATGWTAHYDN GKWQESLAKS KKA 873
Length:873
Mass (Da):96,991
Last modified:May 15, 2007 - v1
Checksum:i7D58BDFCD322E355
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000644 Genomic DNA. Translation: ABO91105.1.
RefSeqiYP_001142853.1. NC_009348.1.

Genome annotation databases

EnsemblBacteriaiABO91105; ABO91105; ASA_3111.
GeneIDi4995997.
KEGGiasa:ASA_3111.
PATRICi20792637. VBIAerSal2987_3089.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000644 Genomic DNA. Translation: ABO91105.1 .
RefSeqi YP_001142853.1. NC_009348.1.

3D structure databases

ProteinModelPortali A4SQD3.
SMRi A4SQD3. Positions 2-595, 748-865.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 382245.ASA_3111.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABO91105 ; ABO91105 ; ASA_3111 .
GeneIDi 4995997.
KEGGi asa:ASA_3111.
PATRICi 20792637. VBIAerSal2987_3089.

Phylogenomic databases

eggNOGi COG0551.
HOGENOMi HOG000004018.
KOi K03168.
OMAi VVECDKC.
OrthoDBi EOG6S7XQ9.

Enzyme and pathway databases

BioCyci ASAL382245:GJJN-3098-MONOMER.

Family and domain databases

Gene3Di 1.10.460.10. 2 hits.
2.70.20.10. 2 hits.
3.40.50.140. 1 hit.
HAMAPi MF_00952. Topoisom_1_prok.
InterProi IPR000380. 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.
IPR013263. TopoI_Znr_bac.
IPR028612. Topoisom_1_IA.
IPR006171. Toprim_domain.
[Graphical view ]
PANTHERi PTHR11390. PTHR11390. 1 hit.
Pfami PF08272. Topo_Zn_Ribbon. 2 hits.
PF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
PF01396. zf-C4_Topoisom. 2 hits.
[Graphical view ]
PRINTSi PR00417. PRTPISMRASEI.
SMARTi SM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view ]
SUPFAMi SSF56712. SSF56712. 1 hit.
TIGRFAMsi TIGR01051. topA_bact. 1 hit.
PROSITEi PS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "The genome of Aeromonas salmonicida subsp. salmonicida A449: insights into the evolution of a fish pathogen."
    Reith M.E., Singh R.K., Curtis B., Boyd J.M., Bouevitch A., Kimball J., Munholland J., Murphy C., Sarty D., Williams J., Nash J.H., Johnson S.C., Brown L.L.
    BMC Genomics 9:427-427(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: A449.

Entry informationi

Entry nameiA4SQD3_AERS4
AccessioniPrimary (citable) accession number: A4SQD3
Entry historyi
Integrated into UniProtKB/TrEMBL: May 15, 2007
Last sequence update: May 15, 2007
Last modified: September 3, 2014
This is version 66 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome

External Data

Dasty 3

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