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Protein

Ribonucleoside-diphosphate reductase subunit beta

Gene

nrdB

Organism
Bacillus halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125)
Status
Reviewed-Annotation score: 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.

Cofactori

Fe cationBy similarityNote: Binds 2 iron ions per subunit.By similarity

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi88 – 881Iron 1By similarity
Metal bindingi118 – 1181Iron 1By similarity
Metal bindingi118 – 1181Iron 2By similarity
Metal bindingi121 – 1211Iron 1By similarity
Active sitei125 – 1251By similarity
Metal bindingi185 – 1851Iron 2By similarity
Metal bindingi219 – 2191Iron 2By similarity
Metal bindingi222 – 2221Iron 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

BioCyciBHAL272558:GJC5-539-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:nrdB
Ordered Locus Names:BH0502
OrganismiBacillus halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125)
Taxonomic identifieri272558 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillus
ProteomesiUP000001258: Chromosome

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 – 345345Ribonucleoside-diphosphate reductase subunit betaPRO_0000190468Add
BLAST

Interactioni

Subunit structurei

Tetramer of two alpha and two beta subunits.By similarity

Protein-protein interaction databases

STRINGi272558.BH0502.

Structurei

Secondary structure

1
345
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi21 – 233Combined sources
Helixi40 – 4910Combined sources
Helixi54 – 563Combined sources
Helixi60 – 656Combined sources
Helixi66 – 683Combined sources
Helixi71 – 8616Combined sources
Turni87 – 904Combined sources
Helixi94 – 996Combined sources
Helixi105 – 13228Combined sources
Helixi135 – 14612Combined sources
Helixi149 – 16719Combined sources
Helixi171 – 18616Combined sources
Turni187 – 1893Combined sources
Helixi190 – 20112Combined sources
Helixi206 – 23631Combined sources
Helixi238 – 2403Combined sources
Helixi243 – 26725Combined sources
Turni268 – 2703Combined sources
Helixi277 – 29418Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2RCCX-ray1.90A/B/C1-345[»]
ProteinModelPortaliQ9KFH7.
SMRiQ9KFH7. Positions 1-312.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9KFH7.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0208.
KOiK00526.
OMAiHWNKLKA.
OrthoDBiEOG6J48J7.

Family and domain databases

Gene3Di1.10.620.20. 1 hit.
InterProiIPR009078. Ferritin-like_SF.
IPR012348. RNR-rel.
IPR026023. RNR_bsu_prok.
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.

Sequencei

Sequence statusi: Complete.

Q9KFH7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEQLQKRKIY DTTASNASTG ILNGKSSNVL NWDDVRFSWA YPLYKNMLAN
60 70 80 90 100
FWTPFEINMS HDAKQFPTLT ETEQEAFKKI IGLLAFLDSV QTDYSMRAAE
110 120 130 140 150
YLTDSSLAAL MSVLSFQEVV HNQSYSYVLS SLVPKATQDE IFEYWKHDDV
160 170 180 190 200
LKERNEFIID GYEKFVDNPT PKTFLESIVY DVILEGLNFY SGFAFFYNLA
210 220 230 240 250
RNQKMVSTST MINYINRDEQ LHVYLFTNIF KELLVEFPEL NTEETKTFVK
260 270 280 290 300
TTLMKAADLE KDWFRYIIGD KIPGINPEDM ETYISFIANK RAVQLGMEKP
310 320 330 340
YPEIKHNPMK WIRAYEDVNS GKSDFFEQKS RQYAKVSADN GFDEL
Length:345
Mass (Da):40,242
Last modified:October 1, 2000 - v1
Checksum:iD89208F7518152BC
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000004 Genomic DNA. Translation: BAB04221.1.
PIRiF83712.
RefSeqiNP_241368.1. NC_002570.2.
WP_010896680.1. NC_002570.2.

Genome annotation databases

EnsemblBacteriaiBAB04221; BAB04221; BAB04221.
GeneIDi893380.
KEGGibha:BH0502.
PATRICi18937944. VBIBacHal18977_0531.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000004 Genomic DNA. Translation: BAB04221.1.
PIRiF83712.
RefSeqiNP_241368.1. NC_002570.2.
WP_010896680.1. NC_002570.2.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2RCCX-ray1.90A/B/C1-345[»]
ProteinModelPortaliQ9KFH7.
SMRiQ9KFH7. Positions 1-312.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi272558.BH0502.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAB04221; BAB04221; BAB04221.
GeneIDi893380.
KEGGibha:BH0502.
PATRICi18937944. VBIBacHal18977_0531.

Phylogenomic databases

eggNOGiCOG0208.
KOiK00526.
OMAiHWNKLKA.
OrthoDBiEOG6J48J7.

Enzyme and pathway databases

UniPathwayiUPA00326.
BioCyciBHAL272558:GJC5-539-MONOMER.

Miscellaneous databases

EvolutionaryTraceiQ9KFH7.

Family and domain databases

Gene3Di1.10.620.20. 1 hit.
InterProiIPR009078. Ferritin-like_SF.
IPR012348. RNR-rel.
IPR026023. RNR_bsu_prok.
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.
ProtoNetiSearch...

Publicationsi

  1. "Complete genome sequence of the alkaliphilic bacterium Bacillus halodurans and genomic sequence comparison with Bacillus subtilis."
    Takami H., Nakasone K., Takaki Y., Maeno G., Sasaki R., Masui N., Fuji F., Hirama C., Nakamura Y., Ogasawara N., Kuhara S., Horikoshi K.
    Nucleic Acids Res. 28:4317-4331(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125.

Entry informationi

Entry nameiRIR2_BACHD
AccessioniPrimary (citable) accession number: Q9KFH7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 1, 2001
Last sequence update: October 1, 2000
Last modified: March 4, 2015
This is version 103 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. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.