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P34185

- TOP1_SYNE7

UniProt

P34185 - TOP1_SYNE7

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Protein

DNA topoisomerase 1

Gene

topA

Organism
Synechococcus elongatus (strain PCC 7942) (Anacystis nidulans R2)
Status
Reviewed - 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

Magnesium. Binds two Mg2+ per subunit.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi8 – 81Magnesium 1; catalyticUniRule annotation
Sitei32 – 321Interaction with DNAUniRule annotation
Metal bindingi95 – 951Magnesium 1; catalyticUniRule annotation
Metal bindingi95 – 951Magnesium 2UniRule annotation
Metal bindingi97 – 971Magnesium 2UniRule annotation
Sitei151 – 1511Interaction with DNAUniRule annotation
Sitei152 – 1521Interaction with DNAUniRule annotation
Sitei155 – 1551Interaction with DNAUniRule annotation
Sitei160 – 1601Interaction with DNAUniRule annotation
Sitei167 – 1671Interaction with DNAUniRule annotation
Active sitei320 – 3201O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation
Sitei322 – 3221Interaction with DNAUniRule annotation
Sitei515 – 5151Interaction with DNAUniRule annotation

GO - Molecular functioni

  1. DNA binding Source: UniProtKB-KW
  2. DNA topoisomerase type I activity Source: UniProtKB-HAMAP
  3. 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

Enzyme and pathway databases

BioCyciSYNEL:SYNPCC7942_1416-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:Synpcc7942_1416
OrganismiSynechococcus elongatus (strain PCC 7942) (Anacystis nidulans R2)
Taxonomic identifieri1140 [NCBI]
Taxonomic lineageiBacteriaCyanobacteriaOscillatoriophycideaeChroococcalesSynechococcus
ProteomesiUP000002717: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 883883DNA topoisomerase 1PRO_0000145167Add
BLAST

Interactioni

Subunit structurei

Monomer.

Protein-protein interaction databases

STRINGi1140.Synpcc7942_1416.

Structurei

3D structure databases

ProteinModelPortaliP34185.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini2 – 126125ToprimUniRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni175 – 1806Interaction with DNAUniRule annotation

Sequence similaritiesi

Belongs to the type IA topoisomerase family.UniRule annotation
Contains 1 Toprim domain.UniRule annotation

Phylogenomic databases

eggNOGiCOG1754.
HOGENOMiHOG000004020.
KOiK03168.
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_dom.
IPR005733. TopoI_bac-type.
IPR028612. Topoisom_1_IA.
IPR025589. Toprim_C_rpt.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 1 hit.
PfamiPF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
PF13368. Toprim_C_rpt. 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.

P34185-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MPKLVIVESP TKARTIRNYL PKDYRVEASM GHVRDLPQSA SDIPTELKGE
60 70 80 90 100
KWSNLGVDVE NNFAPLYIVP KDKKKIVKTL KDALKDADEL ILATDEDREG
110 120 130 140 150
ESISWHLLQL LQPRVPTKRM VFHEITQEAI QAALKNCRDV DQRLVHAQET
160 170 180 190 200
RRILDRLVGY TLSPLLWKKI AWGLSAGRVQ SVAVRLLVQR ERARRAFRQG
210 220 230 240 250
SYWDLKAQLT VEAGQFEAKL WTLAGQRLAT GNDFDESTGQ IIAGRQVCLL
260 270 280 290 300
DQQEAEALRD RLQTQPWQVK SLEEKPTTRK PAPPFTTSTL QQESNRKLRL
310 320 330 340 350
SARETMRVAQ SLYERGFITY MRTDSVHLSQ QAIEAARSCV EQMYGKNYLS
360 370 380 390 400
PQPRQFTTKS KNAQEAHEAI RPAGNTFRLP QETGLSGAEF ALYDLIWKRT
410 420 430 440 450
IASQMAEARQ TMLSVLLEVD NAEFRASGKR IDFPGFFRAY VEGSDDPDAA
460 470 480 490 500
LEDREILLPA LKVGDRPTCQ ELAAIGHETQ PPARYTEASL VKMLENEGIG
510 520 530 540 550
RPSTYASIIG TIVDRGYAQL VSNTLTPTFT AFAVTALLEQ HFPDLVDTSF
560 570 580 590 600
SARMEQSLDD ISNGEVDWLP YLSQFYRGDR GLEEQVKLRE SEIDPAAART
610 620 630 640 650
VALEGLPAKV RIGRFGAYLE AEADGEPIKA NLPKELTPAD LDVQRVETLL
660 670 680 690 700
RQKTEGPDQL GTHPETDEPI YLLTGAYGPY VQLGAATEEK PKPKRASLPK
710 720 730 740 750
GMSLETISLE QAVGLLSLPR TLGEHPETGR RIQAGLGRFG PYVVCDLGGG
760 770 780 790 800
EKDYRSLKAD DDVLTIDLDR ALELLAQPKK SRGRGKEPIR EVGLHPDDQA
810 820 830 840 850
PIQIFEGPYG LYLKHGKVNA SLPEDEKPET ISLETAVAAL AAKAGQAKAK
860 870 880
GGRRSTGTPK SGETKARTTK TTKKTTTRRT TSR
Length:883
Mass (Da):98,296
Last modified:April 18, 2006 - v2
Checksum:iC90DAC6EE1202B9A
GO

Sequence cautioni

The sequence CAA51086.1 differs from that shown. Reason: Frameshift at several positions.

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti101 – 1022ES → KV in CAA51086. (PubMed:7659748)Curated
Sequence conflicti392 – 3921L → V in CAA51086. (PubMed:7659748)Curated

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X72391 Genomic DNA. Translation: CAA51086.1. Frameshift.
CP000100 Genomic DNA. Translation: ABB57446.1.
PIRiS32158.
RefSeqiYP_400433.1. NC_007604.1.

Genome annotation databases

EnsemblBacteriaiABB57446; ABB57446; Synpcc7942_1416.
GeneIDi3774129.
KEGGisyf:Synpcc7942_1416.
PATRICi23788179. VBISynElo51371_1616.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X72391 Genomic DNA. Translation: CAA51086.1 . Frameshift.
CP000100 Genomic DNA. Translation: ABB57446.1 .
PIRi S32158.
RefSeqi YP_400433.1. NC_007604.1.

3D structure databases

ProteinModelPortali P34185.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 1140.Synpcc7942_1416.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABB57446 ; ABB57446 ; Synpcc7942_1416 .
GeneIDi 3774129.
KEGGi syf:Synpcc7942_1416.
PATRICi 23788179. VBISynElo51371_1616.

Phylogenomic databases

eggNOGi COG1754.
HOGENOMi HOG000004020.
KOi K03168.
OrthoDBi EOG6S7XQ9.

Enzyme and pathway databases

BioCyci SYNEL:SYNPCC7942_1416-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_dom.
IPR005733. TopoI_bac-type.
IPR028612. Topoisom_1_IA.
IPR025589. Toprim_C_rpt.
IPR006171. Toprim_domain.
[Graphical view ]
PANTHERi PTHR11390. PTHR11390. 1 hit.
Pfami PF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
PF13368. Toprim_C_rpt. 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

« Hide 'large scale' publications
  1. "The genomic region of rbcLS in Synechococcus sp. PCC 7942 contains genes involved in the ability to grow under low CO2 concentration and in chlorophyll biosynthesis."
    Ronen-Tarazi M., Lieman-Hurwitz J., Gabay C., Orus M.I., Kaplan A.
    Plant Physiol. 108:1461-1469(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. "Complete sequence of chromosome 1 of Synechococcus elongatus PCC 7942."
    US DOE Joint Genome Institute
    Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina T., Hammon N., Israni S., Pitluck S., Schmutz J., Larimer F., Land M., Kyrpides N., Lykidis A., Richardson P.
    Submitted (AUG-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: PCC 7942.

Entry informationi

Entry nameiTOP1_SYNE7
AccessioniPrimary (citable) accession number: P34185
Secondary accession number(s): Q31NC3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1994
Last sequence update: April 18, 2006
Last modified: October 29, 2014
This is version 103 of the entry and version 2 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. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3