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Q9X3X7

- TOP1_ZYMMO

UniProt

Q9X3X7 - TOP1_ZYMMO

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Protein
DNA topoisomerase 1
Gene
topA, ZMO1193
Organism
Zymomonas mobilis subsp. mobilis (strain ATCC 31821 / ZM4 / CP4)
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 By similarity.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 By similarity.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi7 – 71Magnesium 1; catalytic By similarity
Sitei31 – 311Interaction with DNA By similarity
Metal bindingi80 – 801Magnesium 1; catalytic By similarity
Metal bindingi80 – 801Magnesium 2 By similarity
Metal bindingi82 – 821Magnesium 2 By similarity
Sitei140 – 1401Interaction with DNA By similarity
Sitei141 – 1411Interaction with DNA By similarity
Sitei144 – 1441Interaction with DNA By similarity
Sitei156 – 1561Interaction with DNA By similarity
Active sitei293 – 2931O-(5'-phospho-DNA)-tyrosine intermediate By similarity
Sitei295 – 2951Interaction with DNA By similarity
Sitei488 – 4881Interaction with DNA By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri592 – 61928C4-typeUniRule annotation
Add
BLAST

GO - Molecular functioni

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

Names & Taxonomyi

Protein namesi
Recommended name:
DNA topoisomerase 1 (EC:5.99.1.2)
Alternative name(s):
DNA topoisomerase I
Omega-protein
Relaxing enzyme
Swivelase
Untwisting enzyme
Gene namesi
Name:topA
Ordered Locus Names:ZMO1193
OrganismiZymomonas mobilis subsp. mobilis (strain ATCC 31821 / ZM4 / CP4)
Taxonomic identifieri264203 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaSphingomonadalesSphingomonadaceaeZymomonas
ProteomesiUP000001173: Chromosome

Subcellular locationi

GO - Cellular componenti

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

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 12121212DNA topoisomerase 1UniRule annotation
PRO_0000145175Add
BLAST

Interactioni

Subunit structurei

Monomer By similarity.UniRule annotation

Protein-protein interaction databases

STRINGi264203.ZMO1193.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1 – 114114Toprim
Add
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni164 – 1696Interaction with DNA By similarity

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi1109 – 120799Lys-richUniRule annotation
Add
BLAST

Sequence similaritiesi

Contains 1 Toprim domain.

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiCOG1754.
HOGENOMiHOG000004020.
KOiK03168.

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.
IPR013498. Topo_IA_Znf.
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.
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. 2 hits.
TIGRFAMsiTIGR01051. topA_bact. 1 hit.
PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9X3X7-1 [UniParc]FASTAAdd to Basket

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MKLVVVESPA KAKTIEKYLG SGYQVLASYG HIRDLPSKDG SVNPDNGFSM     50
VWQNYPDKAH RLKAIEDAVK ESDSLILATD PDREGEAISW HILELLKTKK 100
LLPDDVERVT FNAITKAAVT DAMAHPRQLD NDLINAYLAR RALDYLVGFT 150
LSPILWRKLP GAKSAGRVQS VALRLVVDRE QEIEGFKPQE YWSVEADMEA 200
DSIGFTSRLI QWRGQKLEKL SIADKTQAEA AQSDVESGHF TVSNVETKPV 250
SRNPQPPFTT STLQQEAARK LGFAASHTMR LAQSLYEEGL ITYMRTDGVQ 300
MDESAIAAAR KTITQRYDGG YVPDKPRQYQ VKAKNAQEAH EAIRPTDFSR 350
DKAASGDHAR LYELIWKRAL ASQMASAKLE RTTVDLTDGT GQNVLRVTGQ 400
VVLFSGFLTL YEESADDNAN DRDGKEGRAR LPLLRAGDAP LKKEVRADQH 450
FTQPPPRYSE ASLVKKMEDL GIGRPSTYAS VIQVLKDRAY VTLERNRFIP 500
SEAGRLLTAF LERFFERYVS YDFTAGLEDS LDEISGGRAD WQKVLDAFWH 550
DFKPKTAEVM EQQPSAITAE LDKFLEPWLF PDKGDGHDPR ECPSCHTGRL 600
ALKGGRFGAF IACSNYPECK YTRGFGQGED GVDDNEPVLL GYMPENSDDD 650
GYMAFSDQGD ILPANTASAS ETGVTDGGIA ANAAFSGKGN SASHTDRDDL 700
PFDPDEPASS TGNVASSQSR MTGDETASSG NSRDSSAHGV STTAGIDAES 750
QAGISNQALA GKNNAGRTAV SDNKGNNSSS TIAAARKGGS TDDNATVSDP 800
DGDIGSGASS SGQDADNRLL SHRNGDIDSR AIPADHKDSS SDQNASHALS 850
PDRNSDDASV SNSDKKIDSK AVSTGHDVGN AITSDNSPSD NVAHLASTPS 900
SATSSVKVAL ETENNDTAAS KADEQAKEEE ESRKARAVTR RTGRFGPYIQ 950
LGEGKNAKRV SVPRDVNPRE VDFSLASRLL ALPREIGLHP ESGKMIIAGT 1000
GRYGPYLNCD GKYARLSSTE ELLDIDIDRA VVKLAEAAQN KGRTGATLSR 1050
EPLKVFGDSP VTEKPVQLMN GRYGPYVTDG ETNASLPKDT TPESLTFEEA 1100
LALLEARAKM PKKKKTKKAA AKKPAAKKTT TKKAAPKKAT TKTATPKSAT 1150
TDNATSEDGD ATPAKSPAKK AVAKKTTAKK PASKSATKKA PSSKTTAAKK 1200
TSKATPKDEV AE 1212
Length:1,212
Mass (Da):130,689
Last modified:March 23, 2010 - v3
Checksum:i498231607911400F
GO

Sequence cautioni

The sequence AAD21553.1 differs from that shown. Reason: Erroneous initiation.

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti171 – 1722VA → AR in AAD21553. 1 Publication
Sequence conflicti445 – 4451V → F in AAD21553. 1 Publication
Sequence conflicti481 – 4811V → F in AAD21553. 1 Publication
Sequence conflicti1017 – 10171S → F in AAD21553. 1 Publication
Sequence conflicti1174 – 11741K → I in AAD21553. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AF088896 Genomic DNA. Translation: AAD21553.1. Different initiation.
AE008692 Genomic DNA. Translation: AAV89817.2.
RefSeqiYP_162928.2. NC_006526.2.

Genome annotation databases

EnsemblBacteriaiAAV89817; AAV89817; ZMO1193.
GeneIDi3189286.
KEGGizmo:ZMO1193.
PATRICi32567678. VBIZymMob102260_1130.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AF088896 Genomic DNA. Translation: AAD21553.1 . Different initiation.
AE008692 Genomic DNA. Translation: AAV89817.2 .
RefSeqi YP_162928.2. NC_006526.2.

3D structure databases

ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 264203.ZMO1193.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAV89817 ; AAV89817 ; ZMO1193 .
GeneIDi 3189286.
KEGGi zmo:ZMO1193.
PATRICi 32567678. VBIZymMob102260_1130.

Phylogenomic databases

eggNOGi COG1754.
HOGENOMi HOG000004020.
KOi K03168.

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.
IPR013498. Topo_IA_Znf.
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.
PF01396. zf-C4_Topoisom. 1 hit.
[Graphical view ]
PRINTSi PR00417. PRTPISMRASEI.
SMARTi SM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view ]
SUPFAMi SSF56712. SSF56712. 2 hits.
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. Lee H.J., Kang H.S.
    Submitted (AUG-1998) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 31821 / ZM4 / CP4.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 31821 / ZM4 / CP4.

Entry informationi

Entry nameiTOP1_ZYMMO
AccessioniPrimary (citable) accession number: Q9X3X7
Secondary accession number(s): Q5NN93
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 20, 2001
Last sequence update: March 23, 2010
Last modified: September 3, 2014
This is version 99 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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