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Q9X3X7 (TOP1_ZYMMO) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 98. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
DNA topoisomerase 1

EC=5.99.1.2
Alternative name(s):
DNA topoisomerase I
Omega-protein
Relaxing enzyme
Swivelase
Untwisting enzyme
Gene names
Name:topA
Ordered Locus Names:ZMO1193
OrganismZymomonas mobilis subsp. mobilis (strain ATCC 31821 / ZM4 / CP4) [Complete proteome] [HAMAP]
Taxonomic identifier264203 [NCBI]
Taxonomic lineageBacteriaProteobacteriaAlphaproteobacteriaSphingomonadalesSphingomonadaceaeZymomonas

Protein attributes

Sequence length1212 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

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. HAMAP-Rule MF_00952

Catalytic activity

ATP-independent breakage of single-stranded DNA, followed by passage and rejoining. HAMAP-Rule MF_00952

Cofactor

Magnesium. Binds two Mg2+ per subunit By similarity. HAMAP-Rule MF_00952

Subunit structure

Monomer By similarity. HAMAP-Rule MF_00952

Sequence similarities

Belongs to the type IA topoisomerase family.

Contains 1 Toprim domain.

Sequence caution

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

Ontologies

Keywords
   DomainZinc-finger
   LigandDNA-binding
Magnesium
Metal-binding
Zinc
   Molecular functionIsomerase
Topoisomerase
   Technical termComplete proteome
Gene Ontology (GO)
   Biological_processDNA topological change

Inferred from electronic annotation. Source: UniProtKB-HAMAP

   Cellular_componentchromosome

Inferred from electronic annotation. Source: InterPro

   Molecular_functionATP binding

Inferred from electronic annotation. Source: UniProtKB-HAMAP

DNA binding

Inferred from electronic annotation. Source: UniProtKB-KW

DNA topoisomerase type I activity

Inferred from electronic annotation. Source: UniProtKB-HAMAP

magnesium ion binding

Inferred from electronic annotation. Source: UniProtKB-HAMAP

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 12121212DNA topoisomerase 1 HAMAP-Rule MF_00952
PRO_0000145175

Regions

Domain1 – 114114Toprim
Zinc finger592 – 61928C4-type HAMAP-Rule MF_00952
Region164 – 1696Interaction with DNA By similarity
Compositional bias1109 – 120799Lys-rich HAMAP-Rule MF_00952

Sites

Active site2931O-(5'-phospho-DNA)-tyrosine intermediate By similarity
Metal binding71Magnesium 1; catalytic By similarity
Metal binding801Magnesium 1; catalytic By similarity
Metal binding801Magnesium 2 By similarity
Metal binding821Magnesium 2 By similarity
Site311Interaction with DNA By similarity
Site1401Interaction with DNA By similarity
Site1411Interaction with DNA By similarity
Site1441Interaction with DNA By similarity
Site1561Interaction with DNA By similarity
Site2951Interaction with DNA By similarity
Site4881Interaction with DNA By similarity

Experimental info

Sequence conflict171 – 1722VA → AR in AAD21553. Ref.1
Sequence conflict4451V → F in AAD21553. Ref.1
Sequence conflict4811V → F in AAD21553. Ref.1
Sequence conflict10171S → F in AAD21553. Ref.1
Sequence conflict11741K → I in AAD21553. Ref.1

Sequences

Sequence LengthMass (Da)Tools
Q9X3X7 [UniParc].

Last modified March 23, 2010. Version 3.
Checksum: 498231607911400F

FASTA1,212130,689
        10         20         30         40         50         60 
MKLVVVESPA KAKTIEKYLG SGYQVLASYG HIRDLPSKDG SVNPDNGFSM VWQNYPDKAH 

        70         80         90        100        110        120 
RLKAIEDAVK ESDSLILATD PDREGEAISW HILELLKTKK LLPDDVERVT FNAITKAAVT 

       130        140        150        160        170        180 
DAMAHPRQLD NDLINAYLAR RALDYLVGFT LSPILWRKLP GAKSAGRVQS VALRLVVDRE 

       190        200        210        220        230        240 
QEIEGFKPQE YWSVEADMEA DSIGFTSRLI QWRGQKLEKL SIADKTQAEA AQSDVESGHF 

       250        260        270        280        290        300 
TVSNVETKPV SRNPQPPFTT STLQQEAARK LGFAASHTMR LAQSLYEEGL ITYMRTDGVQ 

       310        320        330        340        350        360 
MDESAIAAAR KTITQRYDGG YVPDKPRQYQ VKAKNAQEAH EAIRPTDFSR DKAASGDHAR 

       370        380        390        400        410        420 
LYELIWKRAL ASQMASAKLE RTTVDLTDGT GQNVLRVTGQ VVLFSGFLTL YEESADDNAN 

       430        440        450        460        470        480 
DRDGKEGRAR LPLLRAGDAP LKKEVRADQH FTQPPPRYSE ASLVKKMEDL GIGRPSTYAS 

       490        500        510        520        530        540 
VIQVLKDRAY VTLERNRFIP SEAGRLLTAF LERFFERYVS YDFTAGLEDS LDEISGGRAD 

       550        560        570        580        590        600 
WQKVLDAFWH DFKPKTAEVM EQQPSAITAE LDKFLEPWLF PDKGDGHDPR ECPSCHTGRL 

       610        620        630        640        650        660 
ALKGGRFGAF IACSNYPECK YTRGFGQGED GVDDNEPVLL GYMPENSDDD GYMAFSDQGD 

       670        680        690        700        710        720 
ILPANTASAS ETGVTDGGIA ANAAFSGKGN SASHTDRDDL PFDPDEPASS TGNVASSQSR 

       730        740        750        760        770        780 
MTGDETASSG NSRDSSAHGV STTAGIDAES QAGISNQALA GKNNAGRTAV SDNKGNNSSS 

       790        800        810        820        830        840 
TIAAARKGGS TDDNATVSDP DGDIGSGASS SGQDADNRLL SHRNGDIDSR AIPADHKDSS 

       850        860        870        880        890        900 
SDQNASHALS PDRNSDDASV SNSDKKIDSK AVSTGHDVGN AITSDNSPSD NVAHLASTPS 

       910        920        930        940        950        960 
SATSSVKVAL ETENNDTAAS KADEQAKEEE ESRKARAVTR RTGRFGPYIQ LGEGKNAKRV 

       970        980        990       1000       1010       1020 
SVPRDVNPRE VDFSLASRLL ALPREIGLHP ESGKMIIAGT GRYGPYLNCD GKYARLSSTE 

      1030       1040       1050       1060       1070       1080 
ELLDIDIDRA VVKLAEAAQN KGRTGATLSR EPLKVFGDSP VTEKPVQLMN GRYGPYVTDG 

      1090       1100       1110       1120       1130       1140 
ETNASLPKDT TPESLTFEEA LALLEARAKM PKKKKTKKAA AKKPAAKKTT TKKAAPKKAT 

      1150       1160       1170       1180       1190       1200 
TKTATPKSAT TDNATSEDGD ATPAKSPAKK AVAKKTTAKK PASKSATKKA PSSKTTAAKK 

      1210 
TSKATPKDEV AE 

« Hide

References

« Hide 'large scale' references
[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]"The genome sequence of the ethanologenic bacterium Zymomonas mobilis ZM4."
Seo J.-S., Chong H., Park H.S., Yoon K.-O., Jung C., Kim J.J., Hong J.H., Kim H., Kim J.-H., Kil J.-I., Park C.J., Oh H.-M., Lee J.-S., Jin S.-J., Um H.-W., Lee H.-J., Oh S.-J., Kim J.Y. expand/collapse author list , Kang H.L., Lee S.Y., Lee K.J., Kang H.S.
Nat. Biotechnol. 23:63-68(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 31821 / ZM4 / CP4.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AF088896 Genomic DNA. Translation: AAD21553.1. Different initiation.
AE008692 Genomic DNA. Translation: AAV89817.2.
RefSeqYP_162928.2. NC_006526.2.

3D structure databases

ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING264203.ZMO1193.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaAAV89817; AAV89817; ZMO1193.
GeneID3189286.
KEGGzmo:ZMO1193.
PATRIC32567678. VBIZymMob102260_1130.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG1754.
HOGENOMHOG000004020.
KOK03168.

Family and domain databases

Gene3D1.10.460.10. 2 hits.
2.70.20.10. 2 hits.
3.40.50.140. 1 hit.
HAMAPMF_00952. Topoisom_1_prok.
InterProIPR000380. 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]
PANTHERPTHR11390. PTHR11390. 1 hit.
PfamPF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
PF13368. Toprim_C_rpt. 3 hits.
PF01396. zf-C4_Topoisom. 1 hit.
[Graphical view]
PRINTSPR00417. PRTPISMRASEI.
SMARTSM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view]
SUPFAMSSF56712. SSF56712. 2 hits.
TIGRFAMsTIGR01051. topA_bact. 1 hit.
PROSITEPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameTOP1_ZYMMO
AccessionPrimary (citable) accession number: Q9X3X7
Secondary accession number(s): Q5NN93
Entry history
Integrated into UniProtKB/Swiss-Prot: June 20, 2001
Last sequence update: March 23, 2010
Last modified: July 9, 2014
This is version 98 of the entry and version 3 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families