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P42521

- RIR2_DICDI

UniProt

P42521 - RIR2_DICDI

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Protein
Ribonucleoside-diphosphate reductase small subunit
Gene
rnrB-1, nrdB, DDB_G0272616
rnrB-2, nrdB, DDB_G0274021
Organism
Dictyostelium discoideum (Slime mold)
Status
Reviewed - Annotation score: 4 out of 5 - Experimental evidence at transcript leveli

Functioni

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

Catalytic activityi

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

Cofactori

Binds 2 iron ions per subunit By similarity.

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi81 – 811Iron 1 By similarity
Metal bindingi112 – 1121Iron 1 By similarity
Metal bindingi112 – 1121Iron 2 By similarity
Metal bindingi115 – 1151Iron 1 By similarity
Active sitei119 – 1191 By similarity
Metal bindingi174 – 1741Iron 2 By similarity
Metal bindingi208 – 2081Iron 2 By similarity
Metal bindingi211 – 2111Iron 2 By similarity

GO - Molecular functioni

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

GO - Biological processi

  1. DNA replication Source: dictyBase
  2. deoxyribonucleoside diphosphate metabolic process Source: InterPro
  3. response to drug Source: dictyBase
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

DNA replication

Keywords - Ligandi

Iron, Metal-binding

Enzyme and pathway databases

ReactomeiREACT_212866. E2F mediated regulation of DNA replication.
REACT_212891. G1/S-Specific Transcription.
UniPathwayiUPA00326.

Names & Taxonomyi

Organism-specific databases

Protein namesi
Recommended name:
Ribonucleoside-diphosphate reductase small subunit (EC:1.17.4.1)
Alternative name(s):
Ribonucleotide reductase small subunit
Gene namesi
Name:rnrB-1
Synonyms:nrdB
ORF Names:DDB_G0272616
AND
Name:rnrB-2
Synonyms:nrdB
ORF Names:DDB_G0274021
OrganismiDictyostelium discoideum (Slime mold)
Taxonomic identifieri44689 [NCBI]
Taxonomic lineageiEukaryotaAmoebozoaMycetozoaDictyosteliidaDictyostelium
ProteomesiUP000002195: Chromosome 2, UP000002195: Unassembled WGS sequence
dictyBaseiDDB_G0272616. rnrB-1.
DDB_G0274021. rnrB-2.

Subcellular locationi

Cytoplasm By similarity

GO - Cellular componenti

  1. cytoplasm Source: dictyBase
  2. nucleus Source: dictyBase
  3. ribonucleoside-diphosphate reductase complex Source: dictyBase

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 338338Ribonucleoside-diphosphate reductase small subunit
PRO_0000190456Add
BLAST

Proteomic databases

PRIDEiP42521.

Expressioni

Developmental stagei

Expression is detected in growing cells and decreases dramatically at the onset of development. The rnrB transcript reappears after the cells have formed multicellular aggregates.1 Publication

Interactioni

Subunit structurei

Heterodimer of a large and a small subunit By similarity.

Protein-protein interaction databases

STRINGi44689.DDB_0185062.

Structurei

3D structure databases

ProteinModelPortaliP42521.
SMRiP42521. Positions 12-293.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0208.
KOiK10808.
OMAiCTFACLL.
PhylomeDBiP42521.

Family and domain databases

Gene3Di1.10.620.20. 1 hit.
InterProiIPR009078. Ferritin-like_SF.
IPR012348. RNR-rel.
IPR000358. RNR_small.
[Graphical view]
PANTHERiPTHR23409. PTHR23409. 1 hit.
PfamiPF00268. Ribonuc_red_sm. 1 hit.
[Graphical view]
SUPFAMiSSF47240. SSF47240. 1 hit.
PROSITEiPS00368. RIBORED_SMALL. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P42521-1 [UniParc]FASTAAdd to Basket

« Hide

MEEINKKDTF IEPILKENKD RFVLFPIKYP DIWRMYKKAL ASHWVAEEID    50
LGNDNVDWEY KLTDNERHFI SHVLAFFAAS DGIVNENLAT RFMSEVQIPE 100
ARCFYGFQIA IENIHSETYS LLIETYIKDK QTKDKLFNAI ETIPCIKKKA 150
EWALRWINDS DSFAERLVAF AAVEGIFFSG SFCSIFWLKK RGLMQGLTFS 200
NELISRDEGL HCDFACLLYT KLQRKLDPKV IEKMIRDAVE CEKEFICESL 250
PVDLIGMNSR SMSQYIEFCA DRLVVSLGYK KIFNSSNPFE WMEMISLQRK 300
SNFFEGKVAE YAKTGVAIQG NNQQKNNQSR TLVLDEDF 338
Length:338
Mass (Da):39,371
Last modified:January 16, 2004 - v2
Checksum:i9BF33B855246CD3B
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
L36941 Genomic DNA. Translation: AAB72227.2.
AAFI02000011 Genomic DNA. Translation: EAL70444.1.
AAFI02000009 Genomic DNA. Translation: EAL70945.1.
RefSeqiXP_644369.1. XM_639277.1.
XP_645045.1. XM_639953.1.

Genome annotation databases

EnsemblProtistsiDDB0185062; DDB0185062; DDB_G0272616.
DDB0238222; DDB0238222; DDB_G0274021.
GeneIDi8618721.
8619255.
KEGGiddi:DDB_G0272616.
ddi:DDB_G0274021.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
L36941 Genomic DNA. Translation: AAB72227.2 .
AAFI02000011 Genomic DNA. Translation: EAL70444.1 .
AAFI02000009 Genomic DNA. Translation: EAL70945.1 .
RefSeqi XP_644369.1. XM_639277.1.
XP_645045.1. XM_639953.1.

3D structure databases

ProteinModelPortali P42521.
SMRi P42521. Positions 12-293.
ModBasei Search...

Protein-protein interaction databases

STRINGi 44689.DDB_0185062.

Proteomic databases

PRIDEi P42521.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblProtistsi DDB0185062 ; DDB0185062 ; DDB_G0272616 .
DDB0238222 ; DDB0238222 ; DDB_G0274021 .
GeneIDi 8618721.
8619255.
KEGGi ddi:DDB_G0272616.
ddi:DDB_G0274021.

Organism-specific databases

dictyBasei DDB_G0272616. rnrB-1.
DDB_G0274021. rnrB-2.

Phylogenomic databases

eggNOGi COG0208.
KOi K10808.
OMAi CTFACLL.
PhylomeDBi P42521.

Enzyme and pathway databases

UniPathwayi UPA00326 .
Reactomei REACT_212866. E2F mediated regulation of DNA replication.
REACT_212891. G1/S-Specific Transcription.

Miscellaneous databases

PROi P42521.

Family and domain databases

Gene3Di 1.10.620.20. 1 hit.
InterProi IPR009078. Ferritin-like_SF.
IPR012348. RNR-rel.
IPR000358. RNR_small.
[Graphical view ]
PANTHERi PTHR23409. PTHR23409. 1 hit.
Pfami PF00268. Ribonuc_red_sm. 1 hit.
[Graphical view ]
SUPFAMi SSF47240. SSF47240. 1 hit.
PROSITEi PS00368. RIBORED_SMALL. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "A prespore-specific gene of Dictyostelium discoideum encodes the small subunit of ribonucleotide reductase."
    Tsang A., Bonfils C., Czaika G., Shtevi A., Grant C.
    Biochim. Biophys. Acta 1309:100-108(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], DEVELOPMENTAL STAGE.
  2. Tsang A.
    Submitted (APR-2003) to the EMBL/GenBank/DDBJ databases
    Cited for: SEQUENCE REVISION TO 233-237.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: AX4.
  4. "The genome of the social amoeba Dictyostelium discoideum."
    Eichinger L., Pachebat J.A., Gloeckner G., Rajandream M.A., Sucgang R., Berriman M., Song J., Olsen R., Szafranski K., Xu Q., Tunggal B., Kummerfeld S., Madera M., Konfortov B.A., Rivero F., Bankier A.T., Lehmann R., Hamlin N.
    , Davies R., Gaudet P., Fey P., Pilcher K., Chen G., Saunders D., Sodergren E.J., Davis P., Kerhornou A., Nie X., Hall N., Anjard C., Hemphill L., Bason N., Farbrother P., Desany B., Just E., Morio T., Rost R., Churcher C.M., Cooper J., Haydock S., van Driessche N., Cronin A., Goodhead I., Muzny D.M., Mourier T., Pain A., Lu M., Harper D., Lindsay R., Hauser H., James K.D., Quiles M., Madan Babu M., Saito T., Buchrieser C., Wardroper A., Felder M., Thangavelu M., Johnson D., Knights A., Loulseged H., Mungall K.L., Oliver K., Price C., Quail M.A., Urushihara H., Hernandez J., Rabbinowitsch E., Steffen D., Sanders M., Ma J., Kohara Y., Sharp S., Simmonds M.N., Spiegler S., Tivey A., Sugano S., White B., Walker D., Woodward J.R., Winckler T., Tanaka Y., Shaulsky G., Schleicher M., Weinstock G.M., Rosenthal A., Cox E.C., Chisholm R.L., Gibbs R.A., Loomis W.F., Platzer M., Kay R.R., Williams J.G., Dear P.H., Noegel A.A., Barrell B.G., Kuspa A.
    Nature 435:43-57(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: AX4.

Entry informationi

Entry nameiRIR2_DICDI
AccessioniPrimary (citable) accession number: P42521
Secondary accession number(s): Q556I9, Q86AN2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1995
Last sequence update: January 16, 2004
Last modified: September 3, 2014
This is version 98 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)

Miscellaneousi

Caution

The gene for this protein is duplicated in strains AX3 and AX4. These strains contain a duplication of a segment of 750 kb of chromosome 2 compared to the corresponding sequence in strain AX2.

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Dictyostelium discoideum
    Dictyostelium discoideum: entries, gene names and cross-references to dictyBase
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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