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O34919

- YOSS_BACSU

UniProt

O34919 - YOSS_BACSU

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Protein

SPBc2 prophage-derived deoxyuridine 5'-triphosphate nucleotidohydrolase YosS

Gene

yosS

Organism
Bacillus subtilis (strain 168)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli

Functioni

This enzyme is involved in nucleotide metabolism: it produces dUMP, the immediate precursor of thymidine nucleotides and it decreases the intracellular concentration of dUTP so that uracil cannot be incorporated into DNA.

Catalytic activityi

dUTP + H2O = dUMP + diphosphate.

Cofactori

Magnesium.1 Publication

Kineticsi

  1. KM=0.6 µM for dUTP1 Publication

pH dependencei

Optimum pH is 5.5.1 Publication

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei74 – 741SubstrateBy similarity

GO - Molecular functioni

  1. dUTP diphosphatase activity Source: UniProtKB
  2. magnesium ion binding Source: UniProtKB

GO - Biological processi

  1. dUMP biosynthetic process Source: UniProtKB
  2. dUTP catabolic process Source: UniProtKB
  3. protein homotrimerization Source: UniProtKB
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Biological processi

Nucleotide metabolism

Keywords - Ligandi

Magnesium, Metal-binding

Enzyme and pathway databases

BioCyciBSUB:BSU20020-MONOMER.
UniPathwayiUPA00610; UER00666.

Names & Taxonomyi

Protein namesi
Recommended name:
SPBc2 prophage-derived deoxyuridine 5'-triphosphate nucleotidohydrolase YosS (EC:3.6.1.23)
Short name:
dUTPase
Alternative name(s):
dUTP pyrophosphatase
Gene namesi
Name:yosS
Synonyms:yojU
Ordered Locus Names:BSU20020
OrganismiBacillus subtilis (strain 168)
Taxonomic identifieri224308 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillus
ProteomesiUP000001570: Chromosome

Organism-specific databases

GenoListiBSU20020.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 142142SPBc2 prophage-derived deoxyuridine 5'-triphosphate nucleotidohydrolase YosSPRO_0000389002Add
BLAST

Proteomic databases

PaxDbiO34919.

Interactioni

Subunit structurei

Homotrimer.1 Publication

Protein-protein interaction databases

STRINGi224308.BSU20020.

Structurei

Secondary structure

1
142
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi2 – 98
Beta strandi18 – 203
Beta strandi24 – 274
Beta strandi32 – 343
Beta strandi39 – 4911
Beta strandi54 – 607
Helixi64 – 685
Beta strandi70 – 723
Beta strandi75 – 806
Beta strandi89 – 9810
Beta strandi100 – 1023
Beta strandi107 – 1159
Beta strandi120 – 1245

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2BAZX-ray2.30A/B/C1-142[»]
2XX6X-ray1.74A/B/C/D1-142[»]
2XY3X-ray2.55A/B/C/D/E/F1-142[»]
2Y1TX-ray1.89A/B/C/D/E/F1-142[»]
4AO5X-ray1.60A/B/C/D/E/F1-142[»]
ProteinModelPortaliO34919.
SMRiO34919. Positions 1-128.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO34919.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni61 – 633Substrate bindingBy similarity
Regioni78 – 803Substrate bindingBy similarity

Sequence similaritiesi

Belongs to the dUTPase family.Curated

Phylogenomic databases

eggNOGiCOG0756.
HOGENOMiHOG000028966.
InParanoidiO34919.
KOiK01520.
OMAiETQTRIN.
OrthoDBiEOG689HXK.
PhylomeDBiO34919.

Family and domain databases

Gene3Di2.70.40.10. 1 hit.
InterProiIPR029054. dUTPase-like.
IPR008180. dUTPase/dCTP_deaminase.
[Graphical view]
PfamiPF00692. dUTPase. 1 hit.
[Graphical view]
SUPFAMiSSF51283. SSF51283. 1 hit.

Sequencei

Sequence statusi: Complete.

O34919-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MQIKIKYLDE TQTRINKMEQ GDWIDLRAAE DVAIKKDEFK LVPLGVAMEL
60 70 80 90 100
PEGYEAHVVP RSSTYKNFGV IQTNSMGVID ESYKGDNDFW FFPAYALRDT
110 120 130 140
KIKKGDRICQ FRIMKKMPAV DLIEVDRLGN GDRGGHGSTG TK
Length:142
Mass (Da):16,148
Last modified:January 1, 1998 - v1
Checksum:iA986C4CCF2364B74
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AF012906 Genomic DNA. Translation: AAB92488.1.
AL009126 Genomic DNA. Translation: CAB13893.1.
RefSeqiNP_389883.1. NC_000964.3.

Genome annotation databases

EnsemblBacteriaiCAB13893; CAB13893; BSU20020.
GeneIDi939536.
KEGGibsu:BSU20020.
PATRICi18975849. VBIBacSub10457_2115.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AF012906 Genomic DNA. Translation: AAB92488.1 .
AL009126 Genomic DNA. Translation: CAB13893.1 .
RefSeqi NP_389883.1. NC_000964.3.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
2BAZ X-ray 2.30 A/B/C 1-142 [» ]
2XX6 X-ray 1.74 A/B/C/D 1-142 [» ]
2XY3 X-ray 2.55 A/B/C/D/E/F 1-142 [» ]
2Y1T X-ray 1.89 A/B/C/D/E/F 1-142 [» ]
4AO5 X-ray 1.60 A/B/C/D/E/F 1-142 [» ]
ProteinModelPortali O34919.
SMRi O34919. Positions 1-128.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 224308.BSU20020.

Proteomic databases

PaxDbi O34919.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai CAB13893 ; CAB13893 ; BSU20020 .
GeneIDi 939536.
KEGGi bsu:BSU20020.
PATRICi 18975849. VBIBacSub10457_2115.

Organism-specific databases

GenoListi BSU20020.

Phylogenomic databases

eggNOGi COG0756.
HOGENOMi HOG000028966.
InParanoidi O34919.
KOi K01520.
OMAi ETQTRIN.
OrthoDBi EOG689HXK.
PhylomeDBi O34919.

Enzyme and pathway databases

UniPathwayi UPA00610 ; UER00666 .
BioCyci BSUB:BSU20020-MONOMER.

Miscellaneous databases

EvolutionaryTracei O34919.

Family and domain databases

Gene3Di 2.70.40.10. 1 hit.
InterProi IPR029054. dUTPase-like.
IPR008180. dUTPase/dCTP_deaminase.
[Graphical view ]
Pfami PF00692. dUTPase. 1 hit.
[Graphical view ]
SUPFAMi SSF51283. SSF51283. 1 hit.
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "An 8 kb nucleotide sequence at the 3' flanking region of the sspC gene (184 degrees) on the Bacillus subtilis 168 chromosome containing an intein and an intron."
    Ghim S.-Y., Choi S.-K., Shin B.-S., Park S.-H.
    DNA Res. 5:121-126(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: 168.
  2. "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.
  3. "Cloning, expression, purification, and characterisation of the dUTPase encoded by the integrated Bacillus subtilis temperate bacteriophage SPbeta."
    Persson R., McGeehan J., Wilson K.S.
    Protein Expr. Purif. 42:92-99(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: BIOPHYSICOCHEMICAL PROPERTIES, COFACTOR, SUBUNIT.
  4. "Crystallization and preliminary crystallographic analysis of deoxyuridine 5'-triphosphate nucleotidohydrolase from Bacillus subtilis."
    Persson R., Harkiolaki M., McGeehan J., Wilson K.S.
    Acta Crystallogr. D 57:876-878(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: PRELIMINARY CRYSTALLIZATION.
  5. "Crystallization and preliminary X-ray analysis of three dUTPases from Gram-positive bacteria."
    Li G.-L., Wang J., Li L.-F., Su X.-D.
    Acta Crystallogr. F 65:339-342(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.3 ANGSTROMS).

Entry informationi

Entry nameiYOSS_BACSU
AccessioniPrimary (citable) accession number: O34919
Secondary accession number(s): Q7BVP9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 24, 2009
Last sequence update: January 1, 1998
Last modified: October 29, 2014
This is version 92 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. Bacillus subtilis
    Bacillus subtilis (strain 168): entries, gene names and cross-references to SubtiList
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3