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P55991

- TOP1_HELPY

UniProt

P55991 - TOP1_HELPY

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Protein

DNA topoisomerase 1

Gene
topA, HP_0116
Organism
Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
Status
Reviewed - Annotation score: 4 out of 5 - Experimental evidence at protein leveli

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 annotation

Catalytic activityi

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

Cofactori

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

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi8 – 81Magnesium 1; catalytic By similarity
Sitei32 – 321Interaction with DNA By similarity
Metal bindingi82 – 821Magnesium 1; catalytic By similarity
Metal bindingi82 – 821Magnesium 2 By similarity
Metal bindingi84 – 841Magnesium 2 By similarity
Sitei139 – 1391Interaction with DNA By similarity
Sitei140 – 1401Interaction with DNA By similarity
Sitei143 – 1431Interaction with DNA By similarity
Active sitei297 – 2971O-(5'-phospho-DNA)-tyrosine intermediate By similarity
Sitei299 – 2991Interaction with DNA By similarity
Sitei484 – 4841Interaction with DNA By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri572 – 59827C4-type 1UniRule annotationAdd
BLAST
Zinc fingeri616 – 64227C4-type 2UniRule annotationAdd
BLAST
Zinc fingeri663 – 68927C4-type 3UniRule annotationAdd
BLAST
Zinc fingeri702 – 72524C4-type 4UniRule annotationAdd
BLAST

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. magnesium ion binding Source: UniProtKB-HAMAP
  5. protein binding Source: IntAct

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

Enzyme and pathway databases

BioCyciHPY:HP0116-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA topoisomerase 1 (EC:5.99.1.2)
Alternative name(s):
DNA topoisomerase I
Omega-protein
Relaxing enzyme
Swivelase
Untwisting enzyme
Gene namesi
Name:topA
Ordered Locus Names:HP_0116
OrganismiHelicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
Taxonomic identifieri85962 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaEpsilonproteobacteriaCampylobacteralesHelicobacteraceaeHelicobacter
ProteomesiUP000000429: Chromosome

Subcellular locationi

GO - Cellular componenti

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

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 736736DNA topoisomerase 1UniRule annotationPRO_0000145150Add
BLAST

Proteomic databases

PRIDEiP55991.

Interactioni

Subunit structurei

Monomer By similarity.UniRule annotation

Binary interactionsi

WithEntry#Exp.IntActNotes
flgBO260813EBI-7493738,EBI-7500288

Protein-protein interaction databases

DIPiDIP-3057N.
IntActiP55991. 16 interactions.
MINTiMINT-182749.
STRINGi85962.HP0116.

Structurei

3D structure databases

ProteinModelPortaliP55991.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini2 – 113112ToprimAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni163 – 1686Interaction with DNA By similarity

Sequence similaritiesi

Contains 1 Toprim domain.

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri572 – 59827C4-type 1UniRule annotationAdd
BLAST
Zinc fingeri616 – 64227C4-type 2UniRule annotationAdd
BLAST
Zinc fingeri663 – 68927C4-type 3UniRule annotationAdd
BLAST
Zinc fingeri702 – 72524C4-type 4UniRule annotationAdd
BLAST

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiCOG0551.
KOiK03168.
OMAiQNDPIEP.
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.
IPR028612. Topoisom_1_IA.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 1 hit.
PfamiPF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
PF01396. zf-C4_Topoisom. 3 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.

P55991-1 [UniParc]FASTAAdd to Basket

« Hide

MKHLIIVESP AKAKTIKNFL DKNYEVIASK GHVRDLSKFA LGIKIDETGF    50
TPNYVVDKDH KELVKQIIEL SKKASITYIA TDEDREGEAI GYHVACLIGG 100
KLESYPRIVF HEITQNAILN ALKTPRKIDM SKVNAQQARR FLDRIVGFKL 150
SSLIASKITK GLSAGRVQSA ALKLVIDKER EIKAFKPLTY FTLDAYFESH 200
LEAQLISYKG NKLKAQELID EKKAQEIKNE LEKESYAISS IVKKSKKSPT 250
PPPFMTSTLQ QSASSLLGFS PTKTMSIAQK LYEGVATPQG VMGVITYMRT 300
DSLNIAKEAL EEARNKILKD YGKDYLPPKA KVYSSKNKNA QEAHEAIRPT 350
SIILEPNALK DYLKPEELRL YTLIYKRFLA SQMQDALFES QSVVVACEKG 400
EFKASGRKLL FDGYYKILGN DDKDKLLPNL KENDPIKLEK LESNAHVTEP 450
PARYSEASLI KVLESLGIGR PSTYAPTISL LQNRDYIKVE KKQISALESA 500
FKVIEILEKH FEEIVDSKFS ASLEEELDNI AQNKADYQQV LKDFYYPFMD 550
KIEAGKKNII SQKVHEKTGQ SCPKCGGELV KKNSRYGEFI ACNNYPKCKY 600
VKQTESANDE ADQELCEKCG GEMVQKFSRN GAFLACNNYP ECKNTKSLKN 650
TPNAKETIEG VKCPECGGDI ALKRSKKGSF YGCNNYPKCN FLSNHKPINK 700
RCEKCHYLMS ERIYRKKKAH ECIKCKERVF LEEDNG 736
Length:736
Mass (Da):83,196
Last modified:November 1, 1997 - v1
Checksum:i357CE39735F48475
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE000511 Genomic DNA. Translation: AAD07184.1.
PIRiD64534.
RefSeqiNP_206916.1. NC_000915.1.
YP_006934039.1. NC_018939.1.

Genome annotation databases

EnsemblBacteriaiAAD07184; AAD07184; HP_0116.
GeneIDi13869295.
898836.
KEGGiheo:C694_00575.
hpy:HP0116.
PATRICi20591447. VBIHelPyl33062_0123.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE000511 Genomic DNA. Translation: AAD07184.1 .
PIRi D64534.
RefSeqi NP_206916.1. NC_000915.1.
YP_006934039.1. NC_018939.1.

3D structure databases

ProteinModelPortali P55991.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

DIPi DIP-3057N.
IntActi P55991. 16 interactions.
MINTi MINT-182749.
STRINGi 85962.HP0116.

Proteomic databases

PRIDEi P55991.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAD07184 ; AAD07184 ; HP_0116 .
GeneIDi 13869295.
898836.
KEGGi heo:C694_00575.
hpy:HP0116.
PATRICi 20591447. VBIHelPyl33062_0123.

Phylogenomic databases

eggNOGi COG0551.
KOi K03168.
OMAi QNDPIEP.
OrthoDBi EOG6S7XQ9.

Enzyme and pathway databases

BioCyci HPY:HP0116-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.
IPR028612. Topoisom_1_IA.
IPR006171. Toprim_domain.
[Graphical view ]
PANTHERi PTHR11390. PTHR11390. 1 hit.
Pfami PF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
PF01396. zf-C4_Topoisom. 3 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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 700392 / 26695.

Entry informationi

Entry nameiTOP1_HELPY
AccessioniPrimary (citable) accession number: P55991
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1997
Last modified: September 3, 2014
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. Helicobacter pylori
    Helicobacter pylori (strain 26695): entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi