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Protein

DNA topoisomerase 1

Gene

topA

Organism
Buchnera aphidicola subsp. Schizaphis graminum (strain Sg)
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 bindingi105 – 1051Magnesium 1; catalyticUniRule annotation
Metal bindingi105 – 1051Magnesium 2UniRule annotation
Metal bindingi107 – 1071Magnesium 2UniRule annotation
Sitei162 – 1621Interaction with DNAUniRule annotation
Sitei163 – 1631Interaction with DNAUniRule annotation
Sitei166 – 1661Interaction with DNAUniRule annotation
Sitei171 – 1711Interaction with DNAUniRule annotation
Sitei178 – 1781Interaction with DNAUniRule annotation
Active sitei313 – 3131O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation
Sitei315 – 3151Interaction with DNAUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri589 – 62133C4-type 1Add
BLAST
Zinc fingeri649 – 67628C4-type 2Add
BLAST
Zinc fingeri699 – 72426C4-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

Enzyme and pathway databases

BioCyciBAPH198804:GHMG-287-MONOMER.

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:BUsg_273
OrganismiBuchnera aphidicola subsp. Schizaphis graminum (strain Sg)
Taxonomic identifieri198804 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeBuchnera
ProteomesiUP000000416 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

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

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 853853DNA topoisomerase 1PRO_0000145145Add
BLAST

Interactioni

Subunit structurei

Monomer.UniRule annotation

Protein-protein interaction databases

STRINGi198804.BUsg273.

Structurei

3D structure databases

ProteinModelPortaliQ8K9P7.
SMRiQ8K9P7. Positions 3-562, 733-848.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini3 – 136134ToprimUniRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni186 – 1916Interaction 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 fingeri589 – 62133C4-type 1Add
BLAST
Zinc fingeri649 – 67628C4-type 2Add
BLAST
Zinc fingeri699 – 72426C4-type 3Add
BLAST

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiCOG0551.
KOiK03168.
OMAiVVECDKC.
OrthoDBiEOG6S7XQ9.

Family and domain databases

Gene3Di1.10.290.10. 1 hit.
1.10.460.10. 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.
IPR013826. Topo_IA_cen_sub3.
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.

Q8K9P7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MCKSLVIVES PVKAKTISKY LGKQYIVKSS VGHVRDLINN KSKNKKNIKK
60 70 80 90 100
SNIKHNEKTA LIQQMGINPY KNWKAEYHIL PGKEKIISEL KNIANKVHYI
110 120 130 140 150
YLATDLDREG EAIAWHLKEV IGGNSLKFRR VVFNEITKKS IEKAFQNIGK
160 170 180 190 200
INMNRVYSQQ ARRFMDRIVG YMISPLLWKK ISRGLSAGRV QSAAVRLITD
210 220 230 240 250
REYEIKNFIE REHWKISLSL LSKENKKVTM DITHYRNKTF LLNNKKEVNS
260 270 280 290 300
TIEKIKNLSF IITDRKDKIF KKKPPAPLIT STLQQASNID LGFSVKKTMF
310 320 330 340 350
LAQKLYEQGY ITYIRTDSYF LSNYAIEKVR SYIENFYGSD FLPKKSNIYS
360 370 380 390 400
NQKYSQEAHE AIRPSDVQVV NIDNCDPDAK KLYKLIWNYF IASQMKSERY
410 420 430 440 450
KSIKTTVMAD VFKLQSNTKI VLFSGWTKIL KKSNNVNFKF PVLDIGTTLI
460 470 480 490 500
LDKILPHQIF TKPPPRFSES SLVRELEKKG IGRPSTYATI ITKIKEKGYL
510 520 530 540 550
KIKKNKFYAA KIGEILITRL KKNFSDLVDY DFTARMEKNL DQVSDKLINW
560 570 580 590 600
KHLLNSFFDN FSQQLEQAKK PPEEGGMELN TTVPTEIDCS LCNKKMGIKT
610 620 630 640 650
AVTGVFLSCL GYNSEPNEKR CKNTINLISL NDLSTTKKEE KNFHLKNRCK
660 670 680 690 700
KCNLVMDVYL INENLKIFIC INNPSCNGYN LKKGIFKKSL NCSLKKIKCE
710 720 730 740 750
KCKNDMLFKT GRFGNFFMCI NDTCKNTRKI LPNGEISEPK FEPIPFPDIL
760 770 780 790 800
CEKSNTWFVL REGISGIFFA ANTFPKSRET RSPFVEELAR FEYLLPKKLH
810 820 830 840 850
YLASAPQRDN KGNKTIVCFN KLNKQQYIAS KKEGKFTGWA AFFIDRKWCI

VNK
Length:853
Mass (Da):98,816
Last modified:October 1, 2002 - v1
Checksum:i99B454AB78AC6D1B
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE013218 Genomic DNA. Translation: AAM67831.1.
RefSeqiNP_660620.1. NC_004061.1.

Genome annotation databases

EnsemblBacteriaiAAM67831; AAM67831; BUsg_273.
GeneIDi1005477.
KEGGibas:BUsg273.
PATRICi21247351. VBIBucAph100086_0285.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE013218 Genomic DNA. Translation: AAM67831.1.
RefSeqiNP_660620.1. NC_004061.1.

3D structure databases

ProteinModelPortaliQ8K9P7.
SMRiQ8K9P7. Positions 3-562, 733-848.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi198804.BUsg273.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAM67831; AAM67831; BUsg_273.
GeneIDi1005477.
KEGGibas:BUsg273.
PATRICi21247351. VBIBucAph100086_0285.

Phylogenomic databases

eggNOGiCOG0551.
KOiK03168.
OMAiVVECDKC.
OrthoDBiEOG6S7XQ9.

Enzyme and pathway databases

BioCyciBAPH198804:GHMG-287-MONOMER.

Family and domain databases

Gene3Di1.10.290.10. 1 hit.
1.10.460.10. 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.
IPR013826. Topo_IA_cen_sub3.
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: Sg.

Entry informationi

Entry nameiTOP1_BUCAP
AccessioniPrimary (citable) accession number: Q8K9P7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 8, 2002
Last sequence update: October 1, 2002
Last modified: April 1, 2015
This is version 96 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

Documents

  1. Buchnera aphidicola (subsp. Schizaphis graminum)
    Buchnera aphidicola (subsp. Schizaphis graminum): entries and gene names
  2. 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.