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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: DNA replication

This protein is involved in the pathway DNA replication, which is part of Genetic information processing.
View all proteins of this organism that are known to be involved in the pathway DNA replication and in Genetic information processing.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi88Iron 1By similarity1
Metal bindingi118Iron 1By similarity1
Metal bindingi118Iron 2By similarity1
Metal bindingi121Iron 1By similarity1
Active sitei125By similarity1
Metal bindingi185Iron 2By similarity1
Metal bindingi219Iron 2By similarity1
Metal bindingi222Iron 2By similarity1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

DNA replication

Keywords - Ligandi

Iron, Metal-binding

Enzyme and pathway databases

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
Proteomesi
  • UP000001258 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001904681 – 345Ribonucleoside-diphosphate reductase subunit betaAdd BLAST345

Interactioni

Subunit structurei

Tetramer of two alpha and two beta subunits.By similarity

Protein-protein interaction databases

STRINGi272558.BH0502.

Structurei

Secondary structure

1345
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi21 – 23Combined sources3
Helixi40 – 49Combined sources10
Helixi54 – 56Combined sources3
Helixi60 – 65Combined sources6
Helixi66 – 68Combined sources3
Helixi71 – 86Combined sources16
Turni87 – 90Combined sources4
Helixi94 – 99Combined sources6
Helixi105 – 132Combined sources28
Helixi135 – 146Combined sources12
Helixi149 – 167Combined sources19
Helixi171 – 186Combined sources16
Turni187 – 189Combined sources3
Helixi190 – 201Combined sources12
Helixi206 – 236Combined sources31
Helixi238 – 240Combined sources3
Helixi243 – 267Combined sources25
Turni268 – 270Combined sources3
Helixi277 – 294Combined sources18

3D structure databases

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

Miscellaneous databases

EvolutionaryTraceiQ9KFH7.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiENOG4105E05. Bacteria.
COG0208. LUCA.
KOiK00526.
OMAiCNRRCQQ.
OrthoDBiPOG091H05VC.

Family and domain databases

CDDicd01049. RNRR2. 1 hit.
Gene3Di1.10.620.20. 1 hit.
InterProiIPR009078. Ferritin-like_SF.
IPR012348. RNR-rel.
IPR033909. RNR_small.
IPR000358. RNR_small_fam.
[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.
RefSeqiWP_010896680.1. NC_002570.2.

Genome annotation databases

EnsemblBacteriaiBAB04221; BAB04221; BAB04221.
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.
RefSeqiWP_010896680.1. NC_002570.2.

3D structure databases

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

Protein-protein interaction databases

STRINGi272558.BH0502.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

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

Phylogenomic databases

eggNOGiENOG4105E05. Bacteria.
COG0208. LUCA.
KOiK00526.
OMAiCNRRCQQ.
OrthoDBiPOG091H05VC.

Enzyme and pathway databases

UniPathwayiUPA00326.

Miscellaneous databases

EvolutionaryTraceiQ9KFH7.

Family and domain databases

CDDicd01049. RNRR2. 1 hit.
Gene3Di1.10.620.20. 1 hit.
InterProiIPR009078. Ferritin-like_SF.
IPR012348. RNR-rel.
IPR033909. RNR_small.
IPR000358. RNR_small_fam.
[Graphical view]
PANTHERiPTHR23409. PTHR23409. 1 hit.
PfamiPF00268. Ribonuc_red_sm. 1 hit.
[Graphical view]
PIRSFiPIRSF000355. NrdB. 1 hit.
SUPFAMiSSF47240. SSF47240. 1 hit.
ProtoNetiSearch...

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: November 30, 2016
This is version 116 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

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 one 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.