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Protein

DNA topoisomerase 1

Gene

topA

Organism
Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228)
Status
Reviewed-Annotation score: Annotation score: 4 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.UniRule annotation

Catalytic activityi

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

Cofactori

Mg2+UniRule annotationNote: Binds two Mg2+ per subunit.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi9 – 91Magnesium 1; catalyticUniRule annotation
Sitei33 – 331Interaction with DNAUniRule annotation
Metal bindingi116 – 1161Magnesium 1; catalyticUniRule annotation
Metal bindingi116 – 1161Magnesium 2UniRule annotation
Metal bindingi118 – 1181Magnesium 2UniRule annotation
Sitei173 – 1731Interaction with DNAUniRule annotation
Sitei174 – 1741Interaction with DNAUniRule annotation
Sitei177 – 1771Interaction with DNAUniRule annotation
Sitei182 – 1821Interaction with DNAUniRule annotation
Sitei189 – 1891Interaction with DNAUniRule annotation
Active sitei324 – 3241O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation
Sitei326 – 3261Interaction with DNAUniRule annotation
Sitei512 – 5121Interaction with DNAUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri602 – 63332C4-type 1Add
BLAST
Zinc fingeri664 – 69128C4-type 2Add
BLAST
Zinc fingeri713 – 73826C4-type 3Add
BLAST

GO - Molecular functioni

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

GO - Biological processi

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

Keywords - Molecular functioni

Isomerase, Topoisomerase

Keywords - Ligandi

DNA-binding, Magnesium, Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
DNA topoisomerase 1UniRule annotation (EC:5.99.1.2UniRule annotation)
Alternative name(s):
DNA topoisomerase IUniRule annotation
Omega-protein
Relaxing enzyme
Swivelase
Untwisting enzyme
Gene namesi
Name:topAUniRule annotation
Ordered Locus Names:PA3011
OrganismiPseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228)
Taxonomic identifieri208964 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaPseudomonadalesPseudomonadaceaePseudomonas
ProteomesiUP000002438: Chromosome

Organism-specific databases

PseudoCAPiPA3011.

Subcellular locationi

GO - Cellular componenti

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

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 868868DNA topoisomerase 1PRO_0000145161Add
BLAST

Interactioni

Subunit structurei

Monomer.UniRule annotation

Protein-protein interaction databases

STRINGi208964.PA3011.

Structurei

3D structure databases

ProteinModelPortaliQ9HZJ5.
SMRiQ9HZJ5. Positions 2-652, 747-868.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini3 – 147145ToprimUniRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni197 – 2026Interaction with DNAUniRule annotation

Sequence similaritiesi

Belongs to the type IA topoisomerase family.UniRule annotation
Contains 1 Toprim domain.UniRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri602 – 63332C4-type 1Add
BLAST
Zinc fingeri664 – 69128C4-type 2Add
BLAST
Zinc fingeri713 – 73826C4-type 3Add
BLAST

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiCOG0551.
HOGENOMiHOG000004018.
InParanoidiQ9HZJ5.
KOiK03168.
OMAiVVECDKC.
OrthoDBiEOG6S7XQ9.
PhylomeDBiQ9HZJ5.

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_dom.
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. 1 hit.
[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.

Q9HZJ5-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MGKSLVIVES PAKAKTINKY LGSQYVVKSS IGHIRDLPTS GSSSSKEPAA
60 70 80 90 100
KGRKSASEAP ALSPKEKARR QLVSRMGVDP EHGWKAKYEI LPGKEKVIDE
110 120 130 140 150
LRRLAKDADT VYLATDLDRE GEAIAWHLRE AIGGDESRYK RVVFNEITKK
160 170 180 190 200
AIQEAFSQPG ELDINRVNAQ QARRFLDRVV GYMVSPLLWQ KIARGLSAGR
210 220 230 240 250
VQSVAVKLVV EREREIRAFV PEEYWEVHAD LGTAKGANVR FEVTREKGEA
260 270 280 290 300
FKPLNEAQAM AALEKLKASA YSVAKREDRP TSSRPSAPFI TSTLQQAASN
310 320 330 340 350
RLGFGVKKTM MMAQRLYEAG YITYMRTDST NLSADAIGMV RGFIEDEFGQ
360 370 380 390 400
KYLPGKANVY SSKEGAQEAH EAIRPSDVNL KPTQLSGMER DAERLYDLIW
410 420 430 440 450
RQFVACQMTP AEYLSTSVSV TAGDFELRAK GRILKFDGYT RVLPQQSKPG
460 470 480 490 500
EDDVLPEMKE GENLKLIKLD PSQHFTKPPA RYSEASLVKE LEKRGIGRPS
510 520 530 540 550
TYAAIISTIQ ERGYVTTHNR RFYAEKMGDI VTDRLNESFA NLMDYGFTAG
560 570 580 590 600
MEEHLDDVAQ GERDWKHLLD EFYGDFKKKL EVAEVSEKGM RANQPTLTNI
610 620 630 640 650
PCRECGRPMM IRTASTGVFL GCSGYSLPPK ERCKATVNLI PGDEIAADDE
660 670 680 690 700
GESESRVLRG KHRCPICSTA MDAYLLDEKH KLHICGNNPD CPGYEIEEGQ
710 720 730 740 750
YRIKGYEGPS LECDKCGSEM QLKTGRFGKF FGCTNPTCKN TRKLLKNGEA
760 770 780 790 800
APPKMDAIRM PELKCEKVDD IYVLRDGASG MFLAASQFPK NRETRAPLVS
810 820 830 840 850
EIIPHKAELD PKYHYLCDAP QKDPDGRPAV IRFSRKTKEQ YVQSEVDGKP
860
TGWRAFYDGG KWKVEDKR
Length:868
Mass (Da):97,283
Last modified:March 1, 2001 - v1
Checksum:i5EB4B8483366C89B
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE004091 Genomic DNA. Translation: AAG06399.1.
PIRiD83269.
RefSeqiNP_251701.1. NC_002516.2.

Genome annotation databases

EnsemblBacteriaiAAG06399; AAG06399; PA3011.
GeneIDi880353.
KEGGipae:PA3011.
PATRICi19840579. VBIPseAer58763_3159.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE004091 Genomic DNA. Translation: AAG06399.1.
PIRiD83269.
RefSeqiNP_251701.1. NC_002516.2.

3D structure databases

ProteinModelPortaliQ9HZJ5.
SMRiQ9HZJ5. Positions 2-652, 747-868.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi208964.PA3011.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAG06399; AAG06399; PA3011.
GeneIDi880353.
KEGGipae:PA3011.
PATRICi19840579. VBIPseAer58763_3159.

Organism-specific databases

PseudoCAPiPA3011.

Phylogenomic databases

eggNOGiCOG0551.
HOGENOMiHOG000004018.
InParanoidiQ9HZJ5.
KOiK03168.
OMAiVVECDKC.
OrthoDBiEOG6S7XQ9.
PhylomeDBiQ9HZJ5.

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_dom.
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. 1 hit.
[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]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228.

Entry informationi

Entry nameiTOP1_PSEAE
AccessioniPrimary (citable) accession number: Q9HZJ5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 20, 2001
Last sequence update: March 1, 2001
Last modified: January 7, 2015
This is version 105 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.