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P50621

- RIR2_BACSU

UniProt

P50621 - RIR2_BACSU

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Protein

Ribonucleoside-diphosphate reductase subunit beta

Gene

nrdF

Organism
Bacillus subtilis (strain 168)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli

Functioni

Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides (By similarity).By similarity

Catalytic activityi

2'-deoxyribonucleoside diphosphate + thioredoxin disulfide + H2O = ribonucleoside diphosphate + thioredoxin.PROSITE-ProRule annotation

Cofactori

Binds 2 iron ions per subunit.By similarity

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi66 – 661Iron 1PROSITE-ProRule annotation
Metal bindingi97 – 971Iron 1PROSITE-ProRule annotation
Metal bindingi97 – 971Iron 2By similarity
Metal bindingi101 – 1011Iron 1PROSITE-ProRule annotation
Active sitei105 – 1051PROSITE-ProRule annotation
Metal bindingi164 – 1641Iron 2By similarity
Metal bindingi198 – 1981Iron 2By similarity
Metal bindingi201 – 2011Iron 2By similarity

GO - Molecular functioni

  1. metal ion binding Source: UniProtKB-KW
  2. ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor Source: UniProtKB-EC

GO - Biological processi

  1. deoxyribonucleoside diphosphate metabolic process Source: InterPro
  2. deoxyribonucleotide biosynthetic process Source: InterPro
  3. DNA replication Source: UniProtKB-UniPathway
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

DNA replication

Keywords - Ligandi

Iron, Metal-binding

Enzyme and pathway databases

BioCyciBSUB:BSU17390-MONOMER.
UniPathwayiUPA00326.

Names & Taxonomyi

Protein namesi
Recommended name:
Ribonucleoside-diphosphate reductase subunit beta (EC:1.17.4.1)
Alternative name(s):
Ribonucleotide reductase small subunit
Gene namesi
Name:nrdF
Ordered Locus Names:BSU17390
OrganismiBacillus subtilis (strain 168)
Taxonomic identifieri224308 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillus
ProteomesiUP000001570: Chromosome

Organism-specific databases

GenoListiBSU17390. [Micado]

Subcellular locationi

GO - Cellular componenti

  1. ribonucleoside-diphosphate reductase complex Source: InterPro
Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 329329Ribonucleoside-diphosphate reductase subunit betaPRO_0000190469Add
BLAST

Proteomic databases

PaxDbiP50621.

Interactioni

Subunit structurei

Tetramer of two alpha and two beta subunits.By similarity

Protein-protein interaction databases

STRINGi224308.BSU17390.

Structurei

Secondary structure

1
329
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi10 – 123Combined sources
Beta strandi14 – 174Combined sources
Helixi18 – 2710Combined sources
Helixi32 – 343Combined sources
Helixi38 – 403Combined sources
Helixi41 – 455Combined sources
Helixi49 – 7123Combined sources
Helixi73 – 808Combined sources
Helixi84 – 9916Combined sources
Helixi101 – 11212Combined sources
Helixi115 – 12713Combined sources
Helixi129 – 14315Combined sources
Helixi150 – 16516Combined sources
Turni166 – 1683Combined sources
Helixi169 – 17911Combined sources
Turni180 – 1823Combined sources
Helixi185 – 21329Combined sources
Helixi218 – 24730Combined sources
Helixi248 – 2503Combined sources
Helixi253 – 27018Combined sources
Helixi284 – 2885Combined sources

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4DR0X-ray1.90A/B1-329[»]
ProteinModelPortaliP50621.
SMRiP50621. Positions 4-286.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0208.
HOGENOMiHOG000246154.
InParanoidiP50621.
KOiK00526.
OMAiEVGWTEE.
OrthoDBiEOG68DD19.
PhylomeDBiP50621.

Family and domain databases

Gene3Di1.10.620.20. 1 hit.
InterProiIPR009078. Ferritin-like_SF.
IPR012348. RNR-rel.
IPR026023. RNR_bsu_prok.
IPR026494. RNR_NrdF.
IPR000358. RNR_small.
[Graphical view]
PANTHERiPTHR23409. PTHR23409. 1 hit.
PfamiPF00268. Ribonuc_red_sm. 1 hit.
[Graphical view]
PIRSFiPIRSF000355. NrdB. 1 hit.
SUPFAMiSSF47240. SSF47240. 1 hit.
TIGRFAMsiTIGR04171. RNR_1b_NrdF. 1 hit.
PROSITEiPS00368. RIBORED_SMALL. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P50621-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MTKIYDAANW SKHEDDFTQM FYNQNVKQFW LPEEIALNGD LLTWKYLGKN
60 70 80 90 100
EQDTYMKVLA GLTLLDTEQG NTGMPIVAEH VDGHQRKAVL NFMAMMENAV
110 120 130 140 150
HAKSYSNIFM TLAPTETINE VFEWVKQNKY LQKKAQMIVG LYKAIQKDDE
160 170 180 190 200
ISLFKAMVAS VYLESFLFYS GFYYPLYFYG QGKLMQSGEI INLILRDEAI
210 220 230 240 250
HGVYVGLLAQ EIYNKQTEEK KAELREFAID LLNQLYENEL EYTEDLYDQV
260 270 280 290 300
GLSHDVKKFI RYNANKALMN LGFDPYFEEE DINPIVLNGL NTKTKSHDFF
310 320
SMKGNGYKKA TVEPLKDDDF YFEDEKEQI
Length:329
Mass (Da):38,379
Last modified:October 1, 1996 - v1
Checksum:i5080C014D2868EEB
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
Z68500 Genomic DNA. Translation: CAA92811.1.
AL009126 Genomic DNA. Translation: CAB13623.1.
PIRiC69667.
RefSeqiNP_389621.1. NC_000964.3.

Genome annotation databases

EnsemblBacteriaiCAB13623; CAB13623; BSU17390.
GeneIDi940076.
KEGGibsu:BSU17390.
PATRICi18975289. VBIBacSub10457_1836.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
Z68500 Genomic DNA. Translation: CAA92811.1 .
AL009126 Genomic DNA. Translation: CAB13623.1 .
PIRi C69667.
RefSeqi NP_389621.1. NC_000964.3.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
4DR0 X-ray 1.90 A/B 1-329 [» ]
ProteinModelPortali P50621.
SMRi P50621. Positions 4-286.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 224308.BSU17390.

Proteomic databases

PaxDbi P50621.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai CAB13623 ; CAB13623 ; BSU17390 .
GeneIDi 940076.
KEGGi bsu:BSU17390.
PATRICi 18975289. VBIBacSub10457_1836.

Organism-specific databases

GenoListi BSU17390. [Micado ]

Phylogenomic databases

eggNOGi COG0208.
HOGENOMi HOG000246154.
InParanoidi P50621.
KOi K00526.
OMAi EVGWTEE.
OrthoDBi EOG68DD19.
PhylomeDBi P50621.

Enzyme and pathway databases

UniPathwayi UPA00326 .
BioCyci BSUB:BSU17390-MONOMER.

Family and domain databases

Gene3Di 1.10.620.20. 1 hit.
InterProi IPR009078. Ferritin-like_SF.
IPR012348. RNR-rel.
IPR026023. RNR_bsu_prok.
IPR026494. RNR_NrdF.
IPR000358. RNR_small.
[Graphical view ]
PANTHERi PTHR23409. PTHR23409. 1 hit.
Pfami PF00268. Ribonuc_red_sm. 1 hit.
[Graphical view ]
PIRSFi PIRSF000355. NrdB. 1 hit.
SUPFAMi SSF47240. SSF47240. 1 hit.
TIGRFAMsi TIGR04171. RNR_1b_NrdF. 1 hit.
PROSITEi PS00368. RIBORED_SMALL. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "The Bacillus subtilis genes for ribonucleotide reductase are similar to the genes for the second class I NrdE/NrdF enzymes of Enterobacteriaceae."
    Scotti C., Valbuzzi A., Perego M., Galizzi A., Albertini A.M.
    Microbiology 142:2995-3004(1996) [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.

Entry informationi

Entry nameiRIR2_BACSU
AccessioniPrimary (citable) accession number: P50621
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 1, 1996
Last modified: October 29, 2014
This is version 107 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