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Protein

DNA topoisomerase 1

Gene

topA

Organism
Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) (Acyrthosiphon pisum symbiotic bacterium)
Status
Reviewed-Annotation score: -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)DescriptionActionsGraphical viewLength
Metal bindingi9Magnesium 1; catalyticUniRule annotation1
Metal bindingi110Magnesium 1; catalyticUniRule annotation1
Metal bindingi110Magnesium 2UniRule annotation1
Metal bindingi112Magnesium 2UniRule annotation1
Active sitei318O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri596 – 628C4-type 1Add BLAST33
Zinc fingeri658 – 685C4-type 2Add BLAST28
Zinc fingeri707 – 732C4-type 3Add BLAST26

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionDNA-binding, Isomerase, Topoisomerase
LigandMagnesium, 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:BU284
OrganismiBuchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) (Acyrthosiphon pisum symbiotic bacterium)
Taxonomic identifieri107806 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesErwiniaceaeBuchnera
Proteomesi
  • UP000001806 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001451441 – 861DNA topoisomerase 1Add BLAST861

Proteomic databases

PRIDEiP57371

Interactioni

Subunit structurei

Monomer.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei33Interaction with DNAUniRule annotation1
Sitei167Interaction with DNAUniRule annotation1
Sitei168Interaction with DNAUniRule annotation1
Sitei171Interaction with DNAUniRule annotation1
Sitei176Interaction with DNAUniRule annotation1
Sitei183Interaction with DNAUniRule annotation1
Sitei320Interaction with DNAUniRule annotation1
Sitei504Interaction with DNAUniRule annotation1

Protein-protein interaction databases

STRINGi107806.BU284

Structurei

3D structure databases

ProteinModelPortaliP57371
SMRiP57371
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini3 – 141ToprimUniRule annotationAdd BLAST139

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni191 – 196Interaction with DNAUniRule annotation6

Sequence similaritiesi

Belongs to the type IA topoisomerase family.UniRule annotation

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri596 – 628C4-type 1Add BLAST33
Zinc fingeri658 – 685C4-type 2Add BLAST28
Zinc fingeri707 – 732C4-type 3Add BLAST26

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiENOG4105C73 Bacteria
COG0550 LUCA
COG0551 LUCA
HOGENOMiHOG000004018
KOiK03168
OMAiPECKYTR

Family and domain databases

CDDicd00186 TOP1Ac, 1 hit
cd03363 TOPRIM_TopoIA_TopoI, 1 hit
Gene3Di1.10.290.10, 1 hit
1.10.460.10, 2 hits
2.70.20.10, 2 hits
HAMAPiMF_00952 Topoisom_1_prok, 1 hit
InterProiView protein in 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
IPR013826 Topo_IA_cen_sub3
IPR023405 Topo_IA_core_domain
IPR003602 Topo_IA_DNA-bd_dom
IPR005733 TopoI_bac-type
IPR013263 TopoI_Znr_bac
IPR028612 Topoisom_1_IA
IPR006171 TOPRIM_domain
IPR034149 TOPRIM_TopoI
PANTHERiPTHR42785 PTHR42785, 1 hit
PfamiView protein in Pfam
PF08272 Topo_Zn_Ribbon, 2 hits
PF01131 Topoisom_bac, 1 hit
PF01751 Toprim, 1 hit
PRINTSiPR00417 PRTPISMRASEI
SMARTiView protein in SMART
SM00437 TOP1Ac, 1 hit
SM00436 TOP1Bc, 1 hit
SM00493 TOPRIM, 1 hit
SUPFAMiSSF56712 SSF56712, 1 hit
TIGRFAMsiTIGR01051 topA_bact, 1 hit
PROSITEiView protein in PROSITE
PS00396 TOPOISOMERASE_I_PROK, 1 hit
PS50880 TOPRIM, 1 hit

Sequencei

Sequence statusi: Complete.

P57371-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQKSLVIVES PAKAKTINQY LGSEYIVKSS IGHIRDLTKG KLYNKEKNKK
60 70 80 90 100
FLNENFIEKT NENKILIKQM GIDPYQNWKF EYHILPGKEK IISELKYIAN
110 120 130 140 150
QVKHIYLATD LDREGEAIAW HLKEVIGGDS SKFSRVVFNE ITQHSIQKAF
160 170 180 190 200
KNVGHINMNR VHAQQARRFM DRIVGYMISP LLWKKIARGL SAGRVQSVAV
210 220 230 240 250
RIIADRESII KNFVPEEYWK LDVSLISQDK KKINMDVTHY NNKKFRPINE
260 270 280 290 300
NEVSFAVEKI QKSSCIVKNY EEKISYLKAP APFITSTLQQ SASLRLGFSV
310 320 330 340 350
KKTMFLAQKL YEEGYITYMR TDSNYLSEYA IKKVRKYIKS NYGSNYLPKE
360 370 380 390 400
PNIYSNEKHS QEAHEAIRPS DIKIKNIDSD HLNSSAKKLY ELIWNQFLAS
410 420 430 440 450
QMKSVKYKSI TVTVLADMFK LQKSERIVMF QGWNKVLIEE KNVFSQFPIL
460 470 480 490 500
QTGSQLFINK VTPSQKFTKP PPRFSEASLV RELEKKGIGR PSTYSAITSK
510 520 530 540 550
IQDRGYVKIK KNKFYAEKMG EILTIRLKKS FSNLIDYNFT AHMEKKLDQV
560 570 580 590 600
AENKVTWRYL LDDFFKKFSE QLEQAKKSPE EGGMELNNIV PTSLNCPICC
610 620 630 640 650
KKMGIKTAIT GVFLSCLGYN NTDNKKRCKK TINLITLNDF NKEQDNQKKI
660 670 680 690 700
SLQLIQKCDI CNMYMDSYFI NEKLKLHICA NNPSCSGYKF EKGVFKSPIY
710 720 730 740 750
LSKTIQCEKC YNNMKLKIGP FGKFFTCINK ICKNTRKILP NGEISDPKLE
760 770 780 790 800
PIPFPELLCK QSDAWFVLRE GISGIFFAAN TFPKSRETRS PFVEELVRFQ
810 820 830 840 850
HLLPEKIYYL SSAPVIDNYG NKTIVCFDKK KKTHYIASKK DGKFTGWSAV
860
FIDQKWCVIN K
Length:861
Mass (Da):99,740
Last modified:December 1, 2000 - v1
Checksum:i903BBF2EA5265599
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000003 Genomic DNA Translation: BAB12994.1
RefSeqiNP_240108.1, NC_002528.1
WP_010896046.1, NC_002528.1

Genome annotation databases

EnsemblBacteriaiBAB12994; BAB12994; BAB12994
GeneIDi1109983
KEGGibuc:BU284
PATRICifig|107806.10.peg.294

Similar proteinsi

Entry informationi

Entry nameiTOP1_BUCAI
AccessioniPrimary (citable) accession number: P57371
Entry historyiIntegrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: December 1, 2000
Last modified: May 23, 2018
This is version 117 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Buchnera aphidicola (subsp. Acyrthosiphon pisum)
    Buchnera aphidicola (subsp. Acyrthosiphon pisum): entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

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