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O67475

- RIR2_AQUAE

UniProt

O67475 - RIR2_AQUAE

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Protein

Ribonucleoside-diphosphate reductase subunit beta

Gene
nrdB, aq_1505
Organism
Aquifex aeolicus (strain VF5)
Status
Reviewed - Annotation score: 3 out of 5 - Protein inferred from homologyi

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 bindingi97 – 971Iron 1 By similarity
Metal bindingi127 – 1271Iron 1 By similarity
Metal bindingi127 – 1271Iron 2 By similarity
Metal bindingi130 – 1301Iron 1 By similarity
Active sitei134 – 1341 By similarity
Metal bindingi194 – 1941Iron 2 By similarity
Metal bindingi228 – 2281Iron 2 By similarity
Metal bindingi577 – 5771Iron 2 By similarity

GO - Molecular functioni

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

GO - Biological processi

  1. deoxyribonucleoside diphosphate metabolic process Source: InterPro
  2. DNA replication Source: UniProtKB-UniPathway
  3. intein-mediated protein splicing Source: InterPro
  4. intron homing Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Endonuclease, Hydrolase, Nuclease, Oxidoreductase

Keywords - Biological processi

DNA replication, Intron homing

Keywords - Ligandi

Iron, Metal-binding

Enzyme and pathway databases

BioCyciAAEO224324:GJBH-1082-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
Cleaved into the following chain:
Alternative name(s):
Aae RIR2 intein
Gene namesi
Name:nrdB
Ordered Locus Names:aq_1505
OrganismiAquifex aeolicus (strain VF5)
Taxonomic identifieri224324 [NCBI]
Taxonomic lineageiBacteriaAquificaeAquificalesAquificaceaeAquifex
ProteomesiUP000000798: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 229229Ribonucleoside-diphosphate reductase subunit beta, 1st part Reviewed predictionPRO_0000030598Add
BLAST
Chaini230 – 575346Aae NrdB intein Reviewed predictionPRO_0000030599Add
BLAST
Chaini576 – 696121Ribonucleoside-diphosphate reductase subunit beta, 2nd part Reviewed predictionPRO_0000030600Add
BLAST

Post-translational modificationi

This protein undergoes a protein self splicing that involves a post-translational excision of the intervening region (intein) followed by peptide ligation Reviewed prediction.

Keywords - PTMi

Autocatalytic cleavage, Protein splicing

Interactioni

Subunit structurei

Tetramer of two alpha and two beta subunits By similarity.

Protein-protein interaction databases

STRINGi224324.aq_1505.

Structurei

3D structure databases

ProteinModelPortaliO67475.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini377 – 507131DOD-type homing endonucleaseAdd
BLAST

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0208.
KOiK00526.
OMAiDEITEEW.
OrthoDBiEOG6J48J7.

Family and domain databases

Gene3Di1.10.620.20. 4 hits.
2.170.16.10. 1 hit.
3.10.28.10. 1 hit.
InterProiIPR009078. Ferritin-like_SF.
IPR028992. Hedgehog/Intein_dom.
IPR003587. Hint_dom_N.
IPR027434. Homing_endonucl.
IPR004042. Intein_endonuc.
IPR006141. Intein_splice_site.
IPR012348. RNR-rel.
IPR000358. RNR_small.
[Graphical view]
PANTHERiPTHR23409. PTHR23409. 1 hit.
PfamiPF00268. Ribonuc_red_sm. 1 hit.
[Graphical view]
SMARTiSM00306. HintN. 1 hit.
[Graphical view]
SUPFAMiSSF47240. SSF47240. 2 hits.
SSF51294. SSF51294. 2 hits.
TIGRFAMsiTIGR01445. intein_Nterm. 1 hit.
PROSITEiPS50818. INTEIN_C_TER. 1 hit.
PS50819. INTEIN_ENDONUCLEASE. 1 hit.
PS50817. INTEIN_N_TER. 1 hit.
PS00368. RIBORED_SMALL. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

O67475-1 [UniParc]FASTAAdd to Basket

« Hide

MEKTEKNELV RKLIFNPQGD REASKRKIIK GNPTNIFELN EIKYSWAFDL    50
YKLMGFTNFW IPEEIQMLED RKQYETVLSD YEKRAYELVL SFLIALDSFQ 100
VDMLKEFGRM ITAPEVEMAI TAQEFQESVH AYSYQFILES VVDPVKADEI 150
YNYWREDERL LERNKVIAEL YNEFIRKPNE ENFIKATIGN YILESLYFYS 200
GFAFFYTLGR QGKMRNTVQQ IKYINRDELC FIEGTEVLTK RGFVDFRELR 250
EDDLVAQYDI ETGEISWTKP YAYVERDYEG SMYRLKHPKS NWEVVATEGH 300
EFIVRNLKTG KERKEPIEKV KLHPYSAIPV AGRYTGEVEE YDLWELVSGK 350
GITLKTRSAV KNKLTPIEKL LIVLQADGTI DSKRNGKFTG FQQLKFFFSK 400
YRKINEFEKI LNECAPYGIK WKKYERQDGI AYTVYYPNDL PIKPTKFFDE 450
WVRLDEITEE WIREFVEELV KWDGHIPKDR NKKKVYYYST KEKRNKDFVQ 500
ALCALGGMRT VVSRERNPKA KNPVYRIWIY LEDDYINTQT MVKEEFYYKG 550
KVYCVSVPKG NIVVRYKDSV CIAGNCHVTL FRNIINTLRK ENPELFTPEI 600
EKWIVEYFKY AVNEEIKWGQ YVTQNQILGI NDVLIERYIK YLGNLRITQI 650
GFDPIYPEVT ENPLKWIDEF RKINNTKTDF FQAKPQTYSK ANELKW 696
Length:696
Mass (Da):82,931
Last modified:August 1, 1998 - v1
Checksum:iE5929D55C455A5EB
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE000657 Genomic DNA. Translation: AAC07431.1.
PIRiA70431.
RefSeqiNP_214040.1. NC_000918.1.

Genome annotation databases

EnsemblBacteriaiAAC07431; AAC07431; aq_1505.
GeneIDi1193098.
KEGGiaae:aq_1505.
PATRICi20960124. VBIAquAeo85532_1175.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE000657 Genomic DNA. Translation: AAC07431.1 .
PIRi A70431.
RefSeqi NP_214040.1. NC_000918.1.

3D structure databases

ProteinModelPortali O67475.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 224324.aq_1505.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAC07431 ; AAC07431 ; aq_1505 .
GeneIDi 1193098.
KEGGi aae:aq_1505.
PATRICi 20960124. VBIAquAeo85532_1175.

Phylogenomic databases

eggNOGi COG0208.
KOi K00526.
OMAi DEITEEW.
OrthoDBi EOG6J48J7.

Enzyme and pathway databases

UniPathwayi UPA00326 .
BioCyci AAEO224324:GJBH-1082-MONOMER.

Family and domain databases

Gene3Di 1.10.620.20. 4 hits.
2.170.16.10. 1 hit.
3.10.28.10. 1 hit.
InterProi IPR009078. Ferritin-like_SF.
IPR028992. Hedgehog/Intein_dom.
IPR003587. Hint_dom_N.
IPR027434. Homing_endonucl.
IPR004042. Intein_endonuc.
IPR006141. Intein_splice_site.
IPR012348. RNR-rel.
IPR000358. RNR_small.
[Graphical view ]
PANTHERi PTHR23409. PTHR23409. 1 hit.
Pfami PF00268. Ribonuc_red_sm. 1 hit.
[Graphical view ]
SMARTi SM00306. HintN. 1 hit.
[Graphical view ]
SUPFAMi SSF47240. SSF47240. 2 hits.
SSF51294. SSF51294. 2 hits.
TIGRFAMsi TIGR01445. intein_Nterm. 1 hit.
PROSITEi PS50818. INTEIN_C_TER. 1 hit.
PS50819. INTEIN_ENDONUCLEASE. 1 hit.
PS50817. INTEIN_N_TER. 1 hit.
PS00368. RIBORED_SMALL. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: VF5.

Entry informationi

Entry nameiRIR2_AQUAE
AccessioniPrimary (citable) accession number: O67475
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 26, 2001
Last sequence update: August 1, 1998
Last modified: June 11, 2014
This is version 106 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

Complete proteome, Reference proteome

Documents

  1. Intein-containing proteins
    List of intein-containing protein entries
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3