DNA topoisomerase 1 - Helicobacter pylori (strain ATCC 700392 / 26695)

Preferred order of sections

Names and origin

Protein names

Recommended 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:	HP_0116

Organism

Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)

Taxonomic identifier

85962 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Epsilonproteobacteria › Campylobacterales › Helicobacteraceae › Helicobacter

Protein attributes

Sequence length	736 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	Releases the supercoiling and torsional tension of DNA 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 than 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.

Ontologies

Keywords
Domain	Repeat Zinc-finger
Ligand	ATP-binding DNA-binding Metal-binding Nucleotide-binding Zinc
Molecular function	Isomerase Topoisomerase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	DNA topological change Inferred from electronic annotation. Source: InterPro
Cellular component	chromosome Inferred from electronic annotation. Source: InterPro
Molecular function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW DNA topoisomerase type I activity Inferred from electronic annotation. Source: EC metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 736

736

DNA topoisomerase 1

PRO_0000145150

Regions

Domain

2 – 111

110

Toprim

Zinc finger

572 – 598

27

C4-type 1

Zinc finger

616 – 642

27

C4-type 2

Zinc finger

663 – 689

27

C4-type 3

Zinc finger

702 – 725

24

C4-type 4

Sites

Active site

297

1

O-(5'-phospho-DNA)-tyrosine intermediate By similarity

Sequences

Sequence

Length

Mass (Da)

Tools

P55991 [UniParc].

Last modified November 1, 1997. Version 1.
Checksum: 357CE39735F48475
Show »

FASTA

736

83,196

        10         20         30         40         50         60 
MKHLIIVESP AKAKTIKNFL DKNYEVIASK GHVRDLSKFA LGIKIDETGF TPNYVVDKDH 

        70         80         90        100        110        120 
KELVKQIIEL SKKASITYIA TDEDREGEAI GYHVACLIGG KLESYPRIVF HEITQNAILN 

       130        140        150        160        170        180 
ALKTPRKIDM SKVNAQQARR FLDRIVGFKL SSLIASKITK GLSAGRVQSA ALKLVIDKER 

       190        200        210        220        230        240 
EIKAFKPLTY FTLDAYFESH LEAQLISYKG NKLKAQELID EKKAQEIKNE LEKESYAISS 

       250        260        270        280        290        300 
IVKKSKKSPT PPPFMTSTLQ QSASSLLGFS PTKTMSIAQK LYEGVATPQG VMGVITYMRT 

       310        320        330        340        350        360 
DSLNIAKEAL EEARNKILKD YGKDYLPPKA KVYSSKNKNA QEAHEAIRPT SIILEPNALK 

       370        380        390        400        410        420 
DYLKPEELRL YTLIYKRFLA SQMQDALFES QSVVVACEKG EFKASGRKLL FDGYYKILGN 

       430        440        450        460        470        480 
DDKDKLLPNL KENDPIKLEK LESNAHVTEP PARYSEASLI KVLESLGIGR PSTYAPTISL 

       490        500        510        520        530        540 
LQNRDYIKVE KKQISALESA FKVIEILEKH FEEIVDSKFS ASLEEELDNI AQNKADYQQV 

       550        560        570        580        590        600 
LKDFYYPFMD KIEAGKKNII SQKVHEKTGQ SCPKCGGELV KKNSRYGEFI ACNNYPKCKY 

       610        620        630        640        650        660 
VKQTESANDE ADQELCEKCG GEMVQKFSRN GAFLACNNYP ECKNTKSLKN TPNAKETIEG 

       670        680        690        700        710        720 
VKCPECGGDI ALKRSKKGSF YGCNNYPKCN FLSNHKPINK RCEKCHYLMS ERIYRKKKAH 

       730 
ECIKCKERVF LEEDNG

« Hide

References

[1]

"The complete genome sequence of the gastric pathogen Helicobacter pylori."
Tomb J.-F., White O., Kerlavage A.R., Clayton R.A., Sutton G.G., Fleischmann R.D., Ketchum K.A., Klenk H.-P., Gill S.R., Dougherty B.A., Nelson K.E., Quackenbush J., Zhou L., Kirkness E.F., Peterson S.N., Loftus B.J., Richardson D.L., Dodson R.J.

Venter J.C.
Nature 388:539-547(1997) [PubMed: 9252185] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 700392 / 26695.

+

Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AE000511 Genomic DNA. Translation: AAD07184.1.
PIR	D64534.
RefSeq	NP_206916.1. NC_000915.1.
3D structure databases
ProteinModelPortal	P55991.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-3057N.
MINT	MINT-182749.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	898836.
GenomeReviews	Gene locus HP_0116 in contig AE000511_GR.
KEGG	hpy:HP0116.
NMPDR	fig\|85962.1.peg.114.
PATRIC	20591447. VBIHelPyl33062_0123.
TIGR	HP_0116.
Phylogenomic databases
HOGENOM	HBG512935.
OMA	IVHAVEN.
ProtClustDB	PRK05582.
Family and domain databases
InterPro	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. IPR006171. Toprim_domain. [Graphical view]
Gene3D	G3DSA:1.10.460.10. Topo_IA_cen_sub1. 2 hits. G3DSA:2.70.20.10. Topo_IA_cen_sub2. 2 hits.
KO	K03168.
PANTHER	PTHR11390. Topo_IA. 1 hit.
Pfam	PF01131. Topoisom_bac. 1 hit. PF01751. Toprim. 1 hit. PF01396. zf-C4_Topoisom. 3 hits. [Graphical view]
PRINTS	PR00417. PRTPISMRASEI.
SMART	SM00437. TOP1Ac. 1 hit. SM00436. TOP1Bc. 1 hit. SM00493. TOPRIM. 1 hit. [Graphical view]
SUPFAM	SSF56712. Topo_IA_core. 1 hit.
TIGRFAMs	TIGR01051. TopA_bact. 1 hit.
PROSITE	PS00396. TOPOISOMERASE_I_PROK. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

TOP1_HELPY

Accession

Primary (citable) accession number: P55991

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1997
Last sequence update:	November 1, 1997
Last modified:	January 25, 2012
This is version 83 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program

Relevant documents

Helicobacter pylori

Helicobacter pylori (strain 26695): entries and gene names

SIMILARITY comments

Index of protein domains and families

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Regions

Sites

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Protocols and materials databases

Genome annotation databases

Phylogenomic databases

Family and domain databases

Entry information

Relevant documents