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P39788

- END3_BACSU

UniProt

P39788 - END3_BACSU

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Protein

Endonuclease III

Gene

nth

Organism
Bacillus subtilis (strain 168)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi

Functioni

DNA repair enzyme that has both DNA N-glycosylase activity and AP-lyase activity. The DNA N-glycosylase activity releases various damaged pyrimidines from DNA by cleaving the N-glycosidic bond, leaving an AP (apurinic/apyrimidinic) site. The AP-lyase activity cleaves the phosphodiester bond 3' to the AP site by a beta-elimination, leaving a 3'-terminal unsaturated sugar and a product with a terminal 5'-phosphate.UniRule annotation

Catalytic activityi

The C-O-P bond 3' to the apurinic or apyrimidinic site in DNA is broken by a beta-elimination reaction, leaving a 3'-terminal unsaturated sugar and a product with a terminal 5'-phosphate.UniRule annotation

Cofactori

Binds 1 4Fe-4S cluster.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi189 – 1891Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi196 – 1961Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi199 – 1991Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi205 – 2051Iron-sulfur (4Fe-4S)UniRule annotation

GO - Molecular functioni

  1. 4 iron, 4 sulfur cluster binding Source: UniProtKB-HAMAP
  2. DNA-(apurinic or apyrimidinic site) lyase activity Source: UniProtKB-HAMAP
  3. DNA binding Source: UniProtKB-HAMAP
  4. DNA N-glycosylase activity Source: UniProtKB-HAMAP
  5. metal ion binding Source: UniProtKB-KW

GO - Biological processi

  1. base-excision repair Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Glycosidase, Hydrolase, Lyase

Keywords - Biological processi

DNA damage, DNA repair

Keywords - Ligandi

4Fe-4S, DNA-binding, Iron, Iron-sulfur, Metal-binding

Enzyme and pathway databases

BioCyciBSUB:BSU22340-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Endonuclease IIIUniRule annotation (EC:4.2.99.18UniRule annotation)
Alternative name(s):
DNA-(apurinic or apyrimidinic site) lyaseUniRule annotation
Gene namesi
Name:nthUniRule annotation
Synonyms:jooB, ypoB
Ordered Locus Names:BSU22340
OrganismiBacillus subtilis (strain 168)
Taxonomic identifieri224308 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillus
ProteomesiUP000001570: Chromosome

Organism-specific databases

GenoListiBSU22340. [Micado]

Pathology & Biotechi

Disruption phenotypei

Cells lacking this gene have a 5-fold increased spontaneous mutation frequency. A triple MutS/MutL/nth disruption has a 280-fold increased spontaneous mutation frequency.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 219219Endonuclease IIIPRO_0000102213Add
BLAST

Proteomic databases

PaxDbiP39788.

Interactioni

Protein-protein interaction databases

STRINGi224308.BSU22340.

Structurei

3D structure databases

ProteinModelPortaliP39788.
SMRiP39788. Positions 1-211.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini109 – 12820HhHUniRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the Nth/MutY family.UniRule annotation
Contains 1 HhH domain.UniRule annotation

Phylogenomic databases

eggNOGiCOG0177.
HOGENOMiHOG000252208.
InParanoidiP39788.
KOiK10773.
OMAiDTHIYRV.
OrthoDBiEOG6H4KC5.
PhylomeDBiP39788.

Family and domain databases

Gene3Di1.10.1670.10. 1 hit.
1.10.340.30. 1 hit.
HAMAPiMF_00942. Nth.
InterProiIPR011257. DNA_glycosylase.
IPR004036. Endonuclease-III-like_CS2.
IPR004035. Endouclease-III_FeS-bd_BS.
IPR003651. Endouclease3_FeS-loop_motif.
IPR003265. HhH-GPD_domain.
IPR000445. HhH_motif.
IPR003583. Hlx-hairpin-Hlx_DNA-bd_motif.
IPR023170. HTH_base_excis_C.
IPR005759. Nth.
[Graphical view]
PfamiPF00633. HHH. 1 hit.
PF00730. HhH-GPD. 1 hit.
[Graphical view]
PIRSFiPIRSF001435. Nth. 1 hit.
SMARTiSM00478. ENDO3c. 1 hit.
SM00525. FES. 1 hit.
SM00278. HhH1. 1 hit.
[Graphical view]
SUPFAMiSSF48150. SSF48150. 1 hit.
TIGRFAMsiTIGR01083. nth. 1 hit.
PROSITEiPS00764. ENDONUCLEASE_III_1. 1 hit.
PS01155. ENDONUCLEASE_III_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P39788-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MLNLKQIEFC LDKIGDMFPH AECELVHSNP FELVVAVALS AQCTDALVNR
60 70 80 90 100
VTKTLFQKYK RPEDYLAVPL EELQQDIKSI GLYRNKAKNI QKLSKMIIED
110 120 130 140 150
YGGEVPRDRD ELVKLPGVGR KTANVVVSVA FGVPAIAVDT HVERVSKRLG
160 170 180 190 200
ICRWKDSVLE VEKTLMRKVP KEDWSVTHHR LIFFGRYHCK AQSPRCAECP
210
LLSLCREGQK RDKKGLVKR
Length:219
Mass (Da):25,000
Last modified:February 1, 1995 - v1
Checksum:iC38C66DA7948BA40
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
U11289 Genomic DNA. Translation: AAA80005.1.
L47709 Genomic DNA. Translation: AAB38457.1.
AL009126 Genomic DNA. Translation: CAB14150.1.
PIRiI40525.
RefSeqiNP_390115.1. NC_000964.3.

Genome annotation databases

EnsemblBacteriaiCAB14150; CAB14150; BSU22340.
GeneIDi939036.
KEGGibsu:BSU22340.
PATRICi18976277. VBIBacSub10457_2329.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
U11289 Genomic DNA. Translation: AAA80005.1 .
L47709 Genomic DNA. Translation: AAB38457.1 .
AL009126 Genomic DNA. Translation: CAB14150.1 .
PIRi I40525.
RefSeqi NP_390115.1. NC_000964.3.

3D structure databases

ProteinModelPortali P39788.
SMRi P39788. Positions 1-211.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 224308.BSU22340.

Proteomic databases

PaxDbi P39788.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai CAB14150 ; CAB14150 ; BSU22340 .
GeneIDi 939036.
KEGGi bsu:BSU22340.
PATRICi 18976277. VBIBacSub10457_2329.

Organism-specific databases

GenoListi BSU22340. [Micado ]

Phylogenomic databases

eggNOGi COG0177.
HOGENOMi HOG000252208.
InParanoidi P39788.
KOi K10773.
OMAi DTHIYRV.
OrthoDBi EOG6H4KC5.
PhylomeDBi P39788.

Enzyme and pathway databases

BioCyci BSUB:BSU22340-MONOMER.

Family and domain databases

Gene3Di 1.10.1670.10. 1 hit.
1.10.340.30. 1 hit.
HAMAPi MF_00942. Nth.
InterProi IPR011257. DNA_glycosylase.
IPR004036. Endonuclease-III-like_CS2.
IPR004035. Endouclease-III_FeS-bd_BS.
IPR003651. Endouclease3_FeS-loop_motif.
IPR003265. HhH-GPD_domain.
IPR000445. HhH_motif.
IPR003583. Hlx-hairpin-Hlx_DNA-bd_motif.
IPR023170. HTH_base_excis_C.
IPR005759. Nth.
[Graphical view ]
Pfami PF00633. HHH. 1 hit.
PF00730. HhH-GPD. 1 hit.
[Graphical view ]
PIRSFi PIRSF001435. Nth. 1 hit.
SMARTi SM00478. ENDO3c. 1 hit.
SM00525. FES. 1 hit.
SM00278. HhH1. 1 hit.
[Graphical view ]
SUPFAMi SSF48150. SSF48150. 1 hit.
TIGRFAMsi TIGR01083. nth. 1 hit.
PROSITEi PS00764. ENDONUCLEASE_III_1. 1 hit.
PS01155. ENDONUCLEASE_III_2. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Nucleotide sequence of the Bacillus subtilis dnaD gene."
    Bruand C., Sorokin A., Serror P., Ehrlich S.D.
    Microbiology 141:321-322(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: 168.
  2. "Sequence analysis of the Bacillus subtilis chromosome region between the serA and kdg loci cloned in a yeast artificial chromosome."
    Sorokin A.V., Azevedo V., Zumstein E., Galleron N., Ehrlich S.D., Serror P.
    Microbiology 142:2005-2016(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: 168 / Marburg / ATCC 6051 / DSM 10 / JCM 1465 / NBRC 13719 / NCIMB 3610 / VKM B-501.
  3. "The complete genome sequence of the Gram-positive bacterium Bacillus subtilis."
    Kunst F., Ogasawara N., Moszer I., Albertini A.M., Alloni G., Azevedo V., Bertero M.G., Bessieres P., Bolotin A., Borchert S., Borriss R., Boursier L., Brans A., Braun M., Brignell S.C., Bron S., Brouillet S., Bruschi C.V.
    , Caldwell B., Capuano V., Carter N.M., Choi S.-K., Codani J.-J., Connerton I.F., Cummings N.J., Daniel R.A., Denizot F., Devine K.M., Duesterhoeft A., Ehrlich S.D., Emmerson P.T., Entian K.-D., Errington J., Fabret C., Ferrari E., Foulger D., Fritz C., Fujita M., Fujita Y., Fuma S., Galizzi A., Galleron N., Ghim S.-Y., Glaser P., Goffeau A., Golightly E.J., Grandi G., Guiseppi G., Guy B.J., Haga K., Haiech J., Harwood C.R., Henaut A., Hilbert H., Holsappel S., Hosono S., Hullo M.-F., Itaya M., Jones L.-M., Joris B., Karamata D., Kasahara Y., Klaerr-Blanchard M., Klein C., Kobayashi Y., Koetter P., Koningstein G., Krogh S., Kumano M., Kurita K., Lapidus A., Lardinois S., Lauber J., Lazarevic V., Lee S.-M., Levine A., Liu H., Masuda S., Mauel C., Medigue C., Medina N., Mellado R.P., Mizuno M., Moestl D., Nakai S., Noback M., Noone D., O'Reilly M., Ogawa K., Ogiwara A., Oudega B., Park S.-H., Parro V., Pohl T.M., Portetelle D., Porwollik S., Prescott A.M., Presecan E., Pujic P., Purnelle B., Rapoport G., Rey M., Reynolds S., Rieger M., Rivolta C., Rocha E., Roche B., Rose M., Sadaie Y., Sato T., Scanlan E., Schleich S., Schroeter R., Scoffone F., Sekiguchi J., Sekowska A., Seror S.J., Serror P., Shin B.-S., Soldo B., Sorokin A., Tacconi E., Takagi T., Takahashi H., Takemaru K., Takeuchi M., Tamakoshi A., Tanaka T., Terpstra P., Tognoni A., Tosato V., Uchiyama S., Vandenbol M., Vannier F., Vassarotti A., Viari A., Wambutt R., Wedler E., Wedler H., Weitzenegger T., Winters P., Wipat A., Yamamoto H., Yamane K., Yasumoto K., Yata K., Yoshida K., Yoshikawa H.-F., Zumstein E., Yoshikawa H., Danchin A.
    Nature 390:249-256(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 168.
  4. "Genetic analysis of Bacillus subtilis mutator genes."
    Sasaki M., Yonemura Y., Kurusu Y.
    J. Gen. Appl. Microbiol. 46:183-187(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: DISRUPTION PHENOTYPE.
    Strain: 168.

Entry informationi

Entry nameiEND3_BACSU
AccessioniPrimary (citable) accession number: P39788
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1995
Last sequence update: February 1, 1995
Last modified: October 29, 2014
This is version 118 of the entry and version 1 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. Bacillus subtilis
    Bacillus subtilis (strain 168): entries, gene names and cross-references to SubtiList
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3