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P17424 (RIR4_SALTY) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 123. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | 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:
Ribonucleoside-diphosphate reductase 2 subunit beta

EC=1.17.4.1
Alternative name(s):
R2F protein
Ribonucleotide reductase 2
Gene names
Name:nrdF
Ordered Locus Names:STM2808
OrganismSalmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) [Reference proteome] [HAMAP]
Taxonomic identifier99287 [NCBI]
Taxonomic lineageBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeSalmonella

Protein attributes

Sequence length319 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides. R2F contains the tyrosyl radical required for catalysis.

Catalytic activity

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

Cofactor

Binds 2 iron ions per subunit.

Pathway

Genetic information processing; DNA replication.

Subunit structure

Tetramer of two alpha and two beta subunits By similarity.

Sequence similarities

Belongs to the ribonucleoside diphosphate reductase small chain family.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 319319Ribonucleoside-diphosphate reductase 2 subunit beta
PRO_0000190489

Sites

Active site1051 By similarity
Metal binding671Iron 1
Metal binding981Iron 1
Metal binding981Iron 2
Metal binding1011Iron 1
Metal binding1581Iron 2
Metal binding1921Iron 2
Metal binding1951Iron 2

Experimental info

Sequence conflict2861L → V in AAA88620. Ref.4

Secondary structure

................................. 319
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P17424 [UniParc].

Last modified October 1, 1994. Version 2.
Checksum: AFBB6E02A57C959A

FASTA31936,232
        10         20         30         40         50         60 
MKLSRISAIN WNKIQDDKDL EVWNRLTSNF WLPEKVPLSN DIPAWQTLSA AEQQLTIRVF 

        70         80         90        100        110        120 
TGLTLLDTIQ NIAGAPSLMA DAITPHEEAV LSNISFMEAV HARSYSSIFS TLCQTKEVDA 

       130        140        150        160        170        180 
AYAWSEENPP LQRKAQIILA HYVSDEPLKK KIASVFLESF LFYSGFWLPM YFSSRGKLTN 

       190        200        210        220        230        240 
TADLIRLIIR DEAVHGYYIG YKYQIALQKL SAIEREELKL FALDLLMELY DNEIRYTEAL 

       250        260        270        280        290        300 
YAETGWVNDV KAFLCYNANK ALMNLGYEAL FPPEMADVNP AILAALSPNA DENHDFFSGS 

       310 
GSSYVMGKTV ETEDEDWNF 

« Hide

References

« Hide 'large scale' references
[1]"Cloning and sequencing of the genes from Salmonella typhimurium encoding a new bacterial ribonucleotide reductase."
Jordan A., Gibert I., Barbe J.
J. Bacteriol. 176:3420-3427(1994) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: LT2.
[2]"Complete genome sequence of Salmonella enterica serovar Typhimurium LT2."
McClelland M., Sanderson K.E., Spieth J., Clifton S.W., Latreille P., Courtney L., Porwollik S., Ali J., Dante M., Du F., Hou S., Layman D., Leonard S., Nguyen C., Scott K., Holmes A., Grewal N., Mulvaney E. expand/collapse author list , Ryan E., Sun H., Florea L., Miller W., Stoneking T., Nhan M., Waterston R., Wilson R.K.
Nature 413:852-856(2001) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: LT2 / SGSC1412 / ATCC 700720.
[3]"Molecular characterization of the proU loci of Salmonella typhimurium and Escherichia coli encoding osmoregulated glycine betaine transport systems."
Stirling D.A., Hulton C.S.J., Waddell L., Park S.F., Stewart G.S.A.B., Booth I.R., Higgins C.F.
Mol. Microbiol. 3:1025-1038(1989) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 219-319.
Strain: LT2.
[4]"Nucleotide sequence of the transcriptional control region of the osmotically regulated proU operon of Salmonella typhimurium and identification of the 5' endpoint of the proU mRNA."
Overdier D.G., Olson E.R., Erickson B.D., Ederer M.M., Csonka L.N.
J. Bacteriol. 171:4694-4706(1989) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 219-319.
[5]"Structure of Salmonella typhimurium nrdF ribonucleotide reductase in its oxidized and reduced forms."
Eriksson M., Jordan A., Eklund H.
Biochemistry 37:13359-13369(1998) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (2.1 ANGSTROMS).
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
X73226 Genomic DNA. Translation: CAA51695.1.
AE006468 Genomic DNA. Translation: AAL21693.1.
X52693 Genomic DNA. Translation: CAA36920.1.
M26063 Genomic DNA. Translation: AAA88620.1.
PIRS34272.
RefSeqNP_461734.1. NC_003197.1.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
1R2FX-ray2.10A/B1-319[»]
2BQ1X-ray4.00I/J1-319[»]
2R2FX-ray2.25A/B1-319[»]
ProteinModelPortalP17424.
SMRP17424. Positions 4-318.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING99287.STM2808.

Proteomic databases

PRIDEP17424.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaAAL21693; AAL21693; STM2808.
GeneID1254331.
KEGGstm:STM2808.
PATRIC32384298. VBISalEnt20916_2966.

Phylogenomic databases

eggNOGCOG0208.
HOGENOMHOG000246154.
KOK00526.
OMANIKDFAF.
OrthoDBEOG68DD19.
PhylomeDBP17424.

Enzyme and pathway databases

BioCycMetaCyc:MONOMER-13836.
SENT99287:GCTI-2825-MONOMER.
UniPathwayUPA00326.

Family and domain databases

Gene3D1.10.620.20. 1 hit.
InterProIPR009078. Ferritin-like_SF.
IPR012348. RNR-rel.
IPR026494. RNR_1b_NrdF.
IPR026023. RNR_bsu_prok.
IPR000358. RNR_small.
[Graphical view]
PANTHERPTHR23409. PTHR23409. 1 hit.
PfamPF00268. Ribonuc_red_sm. 1 hit.
[Graphical view]
PIRSFPIRSF000355. NrdB. 1 hit.
SUPFAMSSF47240. SSF47240. 1 hit.
TIGRFAMsTIGR04171. RNR_1b_NrdF. 1 hit.
PROSITEPS00368. RIBORED_SMALL. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceP17424.

Entry information

Entry nameRIR4_SALTY
AccessionPrimary (citable) accession number: P17424
Entry history
Integrated into UniProtKB/Swiss-Prot: August 1, 1990
Last sequence update: October 1, 1994
Last modified: July 9, 2014
This is version 123 of the entry and version 2 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

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

PATHWAY comments

Index of metabolic and biosynthesis pathways