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B8EMQ0 (B8EMQ0_METSB) Unreviewed, UniProtKB/TrEMBL

Last modified June 11, 2014. Version 45. Feed History...

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

Names and origin

Protein namesRecommended name:
DNA topoisomerase 1 HAMAP-Rule MF_00952

EC=5.99.1.2 HAMAP-Rule MF_00952
Alternative name(s):
DNA topoisomerase I HAMAP-Rule MF_00952
Gene names
Name:topA HAMAP-Rule MF_00952
Ordered Locus Names:Msil_3847 EMBL ACK52729.1
OrganismMethylocella silvestris (strain BL2 / DSM 15510 / NCIMB 13906) [Complete proteome] [HAMAP] EMBL ACK52729.1
Taxonomic identifier395965 [NCBI]
Taxonomic lineageBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBeijerinckiaceaeMethylocella

Protein attributes

Sequence length977 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 SAAS SAAS013825

Catalytic activity

ATP-independent breakage of single-stranded DNA, followed by passage and rejoining. HAMAP-Rule MF_00952 SAAS SAAS013825

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. RuleBase RU004206 HAMAP-Rule MF_00952

Contains 1 Toprim domain. HAMAP-Rule MF_00952

Contains Toprim domain. SAAS SAAS013825

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Regions

Domain1 – 117117Toprim By similarity HAMAP-Rule MF_00952
Region165 – 1706Interaction with DNA By similarity HAMAP-Rule MF_00952

Sites

Active site3031O-(5'-phospho-DNA)-tyrosine intermediate By similarity HAMAP-Rule MF_00952
Metal binding71Magnesium 1; catalytic By similarity HAMAP-Rule MF_00952
Metal binding801Magnesium 1; catalytic By similarity HAMAP-Rule MF_00952
Metal binding801Magnesium 2 By similarity HAMAP-Rule MF_00952
Metal binding821Magnesium 2 By similarity HAMAP-Rule MF_00952
Site311Interaction with DNA By similarity HAMAP-Rule MF_00952
Site1411Interaction with DNA By similarity HAMAP-Rule MF_00952
Site1421Interaction with DNA By similarity HAMAP-Rule MF_00952
Site1451Interaction with DNA By similarity HAMAP-Rule MF_00952
Site1571Interaction with DNA By similarity HAMAP-Rule MF_00952
Site3051Interaction with DNA By similarity HAMAP-Rule MF_00952
Site5001Interaction with DNA By similarity HAMAP-Rule MF_00952

Sequences

Sequence LengthMass (Da)Tools
B8EMQ0 [UniParc].

Last modified March 3, 2009. Version 1.
Checksum: D99B73E5B0748473

FASTA977106,066
        10         20         30         40         50         60 
MYVVIVESPA KAKSINKYLG KGYEVYPSYG HVRDLPAKDG SVDPDADFAM LWDVDVKSAK 

        70         80         90        100        110        120 
RLNEIARAVK DADKIILATD PDREGEAISW HVLEVLKAKK VLKDKPVERV VFNAITKSAV 

       130        140        150        160        170        180 
LEAMQHPRQI DVALVDAYLA RRALDYLVGF NLSPVLWRKL PGARSAGRVQ SVALRLVCDR 

       190        200        210        220        230        240 
ELEIEAFVAR EYWSIVAHLR TQADAPFTAR LVGADGKKIT RLDVGTGAEA AAFKTDLENA 

       250        260        270        280        290        300 
TFRVAEIEAK PAKRHPSAPF TTSTLQQEAS RKLGFAPART MQLAQRLYEG ADIDGETVGL 

       310        320        330        340        350        360 
ITYMRTDGVD LAPEAITSAR SVIARQFGDA YVPKAPRKYT VKAKNAQEAH EAIRPTDLAR 

       370        380        390        400        410        420 
LPRAVARALE PDQAKLYELI WTRTIASQME SAELERTTVD IEALAGARKL DLRATGQVVR 

       430        440        450        460        470        480 
FDGFLKLYQE GRDDEDDDES ARLPDMAKDE RLKRERIEAD QHFTEPPPRF TEATLVKRME 

       490        500        510        520        530        540 
ELGIGRPSTY ASTLAVLRER DYVRIEKKRL HPEDKGRLVT AFLEAFFARY VGYDFTADLE 

       550        560        570        580        590        600 
EKLDRVSNHE IDWKQVLRDF WLDFSGALAG TKDLRTTEVL DRLNEILGPH IFPPKEDGSD 

       610        620        630        640        650        660 
PRGCPSCGEG KLSLKLGKFG AFIGCSNYPE CKFTRTLAAP DGAEANGGER PGVKSLGVDP 

       670        680        690        700        710        720 
DSGEEITLRD GRFGVYVQQG EGEKPKRSSL PPTIAPADLT LEQAIALLSL PREVARHPES 

       730        740        750        760        770        780 
KEPIVAGIGR YGPYVQHGKT YANVAKDEDI ISIGANRAID LIVAKESGLT GRRFGASESA 

       790        800        810        820        830        840 
PARVLGEHPA GGAVSVKAGR YGPYVTHGKI NATLPKEADP TTLTLEGAVA LLAAKASGGG 

       850        860        870        880        890        900 
APMQGRLLGD HPSGGPITVR AGRFGAYVNH GKTNATLKRD ASAETITLEE AIRLIEDKEA 

       910        920        930        940        950        960 
AGGGPRKAAA PKKAAKSSAA AKKAAPNAKN KTAPANDEDP PFEPSPNRKP AAKAAAAAHK 

       970 
KPAAKAAAAK LKQAKQA 

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References

[1]"Complete genome sequence of the aerobic facultative methanotroph Methylocella silvestris BL2."
Chen Y., Crombie A., Rahman M.T., Dedysh S.N., Liesack W., Stott M.B., Alam M., Theisen A.R., Murrell J.C., Dunfield P.F.
J. Bacteriol. 192:3840-3841(2010) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: BL2 / DSM 15510 / NCIMB 13906.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP001280 Genomic DNA. Translation: ACK52729.1.
RefSeqYP_002364091.1. NC_011666.1.

3D structure databases

ProteinModelPortalB8EMQ0.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING395965.Msil_3847.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaACK52729; ACK52729; Msil_3847.
GeneID7092543.
KEGGmsl:Msil_3847.
PATRIC22603546. VBIMetSil55537_4120.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG1754.
HOGENOMHOG000004020.
KOK03168.
OMAFRSAEYW.
OrthoDBEOG6S7XQ9.

Enzyme and pathway databases

BioCycMSIL395965:GCND-3902-MONOMER.

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. 4 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 nameB8EMQ0_METSB
AccessionPrimary (citable) accession number: B8EMQ0
Entry history
Integrated into UniProtKB/TrEMBL: March 3, 2009
Last sequence update: March 3, 2009
Last modified: June 11, 2014
This is version 45 of the entry and version 1 of the sequence. [Complete history]
Entry statusUnreviewed (UniProtKB/TrEMBL)