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Protein

DNA topoisomerase 1

Gene

top1

Organism
Xenopus laevis (African clawed frog)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

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-(3'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 5'-OH DNA strand. TThe free DNA strand then rotates around the intact phosphodiester bond on the opposing strand, thus removing DNA supercoils. Finally, in the religation step, the DNA 5'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone. May play a role in the circadian transcription of the core circadian clock component ARNTL/BMAL1.By similarity

Catalytic activityi

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

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei779O-(3'-phospho-DNA)-tyrosine intermediatePROSITE-ProRule annotation1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Topoisomerase

Keywords - Biological processi

Biological rhythms

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
DNA topoisomerase 1 (EC:5.99.1.2)
Alternative name(s):
DNA topoisomerase I
Gene namesi
Name:top1
OrganismiXenopus laevis (African clawed frog)
Taxonomic identifieri8355 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiAmphibiaBatrachiaAnuraPipoideaPipidaeXenopodinaeXenopusXenopus

Organism-specific databases

XenbaseiXB-GENE-950006. top1.1.

Subcellular locationi

  • Nucleus By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001452041 – 829DNA topoisomerase 1Add BLAST829

Proteomic databases

PRIDEiP41512.

Interactioni

Subunit structurei

Monomer.By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei372Interaction with DNABy similarity1
Sitei420Interaction with DNABy similarity1
Sitei468Interaction with DNABy similarity1
Sitei499Interaction with DNABy similarity1
Sitei557Interaction with DNABy similarity1
Sitei588Interaction with DNABy similarity1
Sitei630Interaction with DNABy similarity1
Sitei688Interaction with DNABy similarity1
Sitei706Interaction with DNABy similarity1

Structurei

3D structure databases

ProteinModelPortaliP41512.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni481 – 482Interaction with DNABy similarity2
Regioni544 – 549Interaction with DNABy similarity6
Regioni641 – 643Interaction with DNABy similarity3

Sequence similaritiesi

Belongs to the type IB topoisomerase family.Curated

Phylogenomic databases

HOVERGENiHBG007988.
KOiK03163.

Family and domain databases

CDDicd00659. Topo_IB_C. 1 hit.
Gene3Di1.10.10.41. 1 hit.
1.10.132.10. 1 hit.
2.170.11.10. 2 hits.
3.90.15.10. 1 hit.
InterProiIPR011010. DNA_brk_join_enz.
IPR013034. DNA_topo_domain1.
IPR001631. TopoI.
IPR018521. TopoI_AS.
IPR025834. TopoI_C_dom.
IPR014711. TopoI_cat_a-hlx-sub_euk.
IPR014727. TopoI_cat_a/b-sub_euk.
IPR013500. TopoI_cat_euk.
IPR008336. TopoI_DNA-bd_euk.
IPR013030. TopoI_DNA-bd_mixed-a/b_euk.
IPR013499. TopoI_euk.
[Graphical view]
PfamiPF14370. Topo_C_assoc. 1 hit.
PF01028. Topoisom_I. 1 hit.
PF02919. Topoisom_I_N. 1 hit.
[Graphical view]
PRINTSiPR00416. EUTPISMRASEI.
SMARTiSM00435. TOPEUc. 1 hit.
[Graphical view]
SUPFAMiSSF56349. SSF56349. 2 hits.
SSF56741. SSF56741. 1 hit.
PROSITEiPS00176. TOPOISOMERASE_I_EUK. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P41512-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSEDHVQNDS QIEAVFRVND SHKHKKDKEH RHKEHKKDKD REKSKHNNSE
60 70 80 90 100
HRDPSEKKHK DKHKNNDKHR EKDGEKHRER DGEKHRDKNG EKHRDGEKHK
110 120 130 140 150
EKDIEKHKEV EKHRVKDGEK HKEKDVEKHK EKDVEKHRDG EKHKHRDKDR
160 170 180 190 200
EKKKEEKMKS SSGGVKVKKE NGFSSPVRVK DEPEDQGFYV SPKENKAMKR
210 220 230 240 250
PREDDEDYKP KKIKSEDDKK GKKRKQEEED IKPKKKSKAK GNEEGVKKKK
260 270 280 290 300
VKKEEEEKWK WWEEERHRDG IKWKFLEHKG PVFAPPYEPV PDNVKFYYDG
310 320 330 340 350
NLVKLSPKAE EVATFFAKML DHEYTTKDIF RKNFFKDWKK EMTTDERNLI
360 370 380 390 400
TNLSKCDFNA MSLYFKEQSE ARKNMTKEEK LKIKAENERL LQEYGYCIMD
410 420 430 440 450
NHKERIANFR IEPPGLFRGR GDHPKMGKLK KRIMPEDIII NCSKDSKIPV
460 470 480 490 500
APAGHKWKEV RHDGKVTWLV SWTENIQGSI KYIMLNPSSR IKGEKDWQKY
510 520 530 540 550
ETARRLKMCV EKIRNTYKED WKSKEMKVRQ RAVALYFIDK LALRAGNEKE
560 570 580 590 600
EGETADTVGC CSLRVEHINL FQELDGQEFV VEFDFPGKDS IRYYNKVPVE
610 620 630 640 650
KRVFKNLQLF MENKQPDDDL FDRLNTSILN KHLQDLMEGL TAKVFRTYNA
660 670 680 690 700
SITLQQQLDE LTNSDDNVPA KILSYNRANR AVAILCNHQR APPKTFEKSM
710 720 730 740 750
MNLQGKIDAK KDQLADARRE FKSAKADAKV RRDEKTKKLV ESKKKAVQRI
760 770 780 790 800
EEQLMKLEVQ ATDREENKQI ALGTSKLNYL DPRISVAWCK KYGVPIEKIY
810 820
NKTQRKNLLG PSIWQTTTSN FNAEQRCFS
Length:829
Mass (Da):98,231
Last modified:November 1, 1995 - v1
Checksum:i8D1FE4252A916219
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L07777 mRNA. Translation: AAB36608.1.
PIRiS72366.
RefSeqiNP_001084031.1. NM_001090562.1.
UniGeneiXl.62.

Genome annotation databases

GeneIDi399263.
KEGGixla:399263.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L07777 mRNA. Translation: AAB36608.1.
PIRiS72366.
RefSeqiNP_001084031.1. NM_001090562.1.
UniGeneiXl.62.

3D structure databases

ProteinModelPortaliP41512.
ModBaseiSearch...
MobiDBiSearch...

Proteomic databases

PRIDEiP41512.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi399263.
KEGGixla:399263.

Organism-specific databases

CTDi399263.
XenbaseiXB-GENE-950006. top1.1.

Phylogenomic databases

HOVERGENiHBG007988.
KOiK03163.

Family and domain databases

CDDicd00659. Topo_IB_C. 1 hit.
Gene3Di1.10.10.41. 1 hit.
1.10.132.10. 1 hit.
2.170.11.10. 2 hits.
3.90.15.10. 1 hit.
InterProiIPR011010. DNA_brk_join_enz.
IPR013034. DNA_topo_domain1.
IPR001631. TopoI.
IPR018521. TopoI_AS.
IPR025834. TopoI_C_dom.
IPR014711. TopoI_cat_a-hlx-sub_euk.
IPR014727. TopoI_cat_a/b-sub_euk.
IPR013500. TopoI_cat_euk.
IPR008336. TopoI_DNA-bd_euk.
IPR013030. TopoI_DNA-bd_mixed-a/b_euk.
IPR013499. TopoI_euk.
[Graphical view]
PfamiPF14370. Topo_C_assoc. 1 hit.
PF01028. Topoisom_I. 1 hit.
PF02919. Topoisom_I_N. 1 hit.
[Graphical view]
PRINTSiPR00416. EUTPISMRASEI.
SMARTiSM00435. TOPEUc. 1 hit.
[Graphical view]
SUPFAMiSSF56349. SSF56349. 2 hits.
SSF56741. SSF56741. 1 hit.
PROSITEiPS00176. TOPOISOMERASE_I_EUK. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiTOP1_XENLA
AccessioniPrimary (citable) accession number: P41512
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1995
Last sequence update: November 1, 1995
Last modified: November 30, 2016
This is version 93 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Miscellaneous

Eukaryotic topoisomerase I and II can relax both negative and positive supercoils, whereas prokaryotic enzymes relax only negative supercoils.

Documents

  1. SIMILARITY comments
    Index of protein domains and families

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 one 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.