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P57276

- RIR1_BUCAI

UniProt

P57276 - RIR1_BUCAI

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Protein

Ribonucleoside-diphosphate reductase subunit alpha

Gene

nrdA

Organism
Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) (Acyrthosiphon pisum symbiotic bacterium)
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).By similarity

Catalytic activityi

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

Enzyme regulationi

Under complex allosteric control mediated by deoxynucleoside triphosphates and ATP binding to separate specificity and activation sites on the alpha subunit. The type of nucleotide bound at the specificity site determines substrate preference. It seems probable that ATP makes the enzyme reduce CDP and UDP, dGTP favors ADP reduction and dTTP favors GDP reduction. Stimulated by ATP and inhibited by dATP binding to the activity site (By similarity).By similarity

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei9 – 91Allosteric activatorBy similarity
Binding sitei55 – 551Allosteric activatorBy similarity
Binding sitei91 – 911Allosteric activatorBy similarity
Binding sitei209 – 2091SubstrateBy similarity
Sitei225 – 2251Important for hydrogen atom transferBy similarity
Sitei232 – 2321Allosteric effector bindingBy similarity
Binding sitei253 – 2531Substrate; via amide nitrogenBy similarity
Sitei262 – 2621Allosteric effector bindingBy similarity
Active sitei437 – 4371Proton acceptorBy similarity
Active sitei439 – 4391Cysteine radical intermediateBy similarity
Active sitei441 – 4411Proton acceptorBy similarity
Sitei462 – 4621Important for hydrogen atom transferBy similarity
Sitei730 – 7301Important for electron transferBy similarity
Sitei731 – 7311Important for electron transferBy similarity
Sitei754 – 7541Interacts with thioredoxin/glutaredoxinBy similarity
Sitei759 – 7591Interacts with thioredoxin/glutaredoxinBy similarity

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-KW
  2. ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor Source: UniProtKB-EC

GO - Biological processi

  1. DNA replication Source: UniProtKB-UniPathway
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

DNA replication

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciBAPH107806:GBZJ-178-MONOMER.
UniPathwayiUPA00326.

Names & Taxonomyi

Protein namesi
Recommended name:
Ribonucleoside-diphosphate reductase subunit alpha (EC:1.17.4.1)
Alternative name(s):
Ribonucleotide reductase
Gene namesi
Name:nrdA
Ordered Locus Names:BU179
OrganismiBuchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) (Acyrthosiphon pisum symbiotic bacterium)
Taxonomic identifieri107806 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeBuchnera
ProteomesiUP000001806: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 761761Ribonucleoside-diphosphate reductase subunit alphaPRO_0000187206Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi225 ↔ 462Redox-activeBy similarity

Keywords - PTMi

Disulfide bond

Interactioni

Subunit structurei

Tetramer of two alpha and two beta subunits.By similarity

Structurei

3D structure databases

ProteinModelPortaliP57276.
SMRiP57276. Positions 5-737.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini5 – 9591ATP-conePROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni15 – 217Allosteric activator bindingBy similarity
Regioni224 – 2252Substrate bindingBy similarity
Regioni437 – 4415Substrate bindingBy similarity
Regioni621 – 6255Substrate bindingBy similarity

Sequence similaritiesi

Contains 1 ATP-cone domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiCOG0209.
HOGENOMiHOG000278076.
KOiK00525.
OMAiLLWQMPS.
OrthoDBiEOG6J48HC.

Family and domain databases

InterProiIPR005144. ATP-cone.
IPR013346. NrdE_NrdA.
IPR000788. RNR_lg_C.
IPR013509. RNR_lsu_N.
IPR008926. RNR_R1-su_N.
[Graphical view]
PfamiPF03477. ATP-cone. 1 hit.
PF02867. Ribonuc_red_lgC. 1 hit.
PF00317. Ribonuc_red_lgN. 1 hit.
[Graphical view]
PRINTSiPR01183. RIBORDTASEM1.
SUPFAMiSSF48168. SSF48168. 1 hit.
TIGRFAMsiTIGR02506. NrdE_NrdA. 1 hit.
PROSITEiPS51161. ATP_CONE. 1 hit.
PS00089. RIBORED_LARGE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P57276-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MKKNLFVTKR DGRKEKINLD KIHKVLNWAS EGLDDVSVSQ VELCSRIQFY
60 70 80 90 100
NNITTINIHE TIIKAAADLI SQDTPDYQYM AARLAIFHLR KKAYGQFEPP
110 120 130 140 150
KLYDHVKKMV DLEKYDENLL KNYSYKEFLQ MNSFIDHWRD MNFSYAAVKQ
160 170 180 190 200
LEGKYLIQNR VNGKIYESAQ FLYILISACL FSQYPKNVRM NYIHRFYNAI
210 220 230 240 250
STFKISLPTP IMSGVRTPTR QFSSCVLIEC GDSLNSINAT TSSIVKYVSQ
260 270 280 290 300
RAGIGVNAGQ IRALGSPIRN GEAFHTGCIP FYKHFQSAVK SCSQGGVRGG
310 320 330 340 350
AATIFYPIWH LEVESLLVLK NNRGIEENRV RHIDYAIQIN KLMYQRMLSG
360 370 380 390 400
DQITLFSPSD VPDLYKAFFS DQKKFKKIYL QYEKNKNIRK KTIKALDLFS
410 420 430 440 450
LMMQERTSTG RIYVQNVDHC NLHSAFNPEL SPIRQSNLCL EITLPTKSLN
460 470 480 490 500
DVHDTDGEIA LCTLSAFNLG KIKSLDDFKE LSILSVRALD EILDYQNYPV
510 520 530 540 550
LAAKKSAISR RSLGIGVINF AYYLAKNKVR YSDGSAHNLT HKTFEAMQYY
560 570 580 590 600
LLEASCELAK EKGACSLFNH TNYYLGKLPI DTYKKYIDDI CNEPLHLDWN
610 620 630 640 650
LLRSKIKKYG LRNSTLSALM PSETSSQISN ATNGIEPPRG FISIKVSKDG
660 670 680 690 700
ILRQVVPEYK KLRLQYELLW DIPNNTGYLQ LAGIMQKFID QSISVNTHYD
710 720 730 740 750
PARFLNNKIP MKQLLYDLLL SYKLGLKTLY YQNTRDGSED DQNITSKSIT
760
EDICESGSCI L
Length:761
Mass (Da):87,166
Last modified:December 1, 2000 - v1
Checksum:i700A2A4AA426AC76
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000003 Genomic DNA. Translation: BAB12896.1.
RefSeqiNP_240010.1. NC_002528.1.

Genome annotation databases

EnsemblBacteriaiBAB12896; BAB12896; BAB12896.
GeneIDi1109622.
KEGGibuc:BU179.
PATRICi21243876. VBIBucAph127364_0190.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000003 Genomic DNA. Translation: BAB12896.1 .
RefSeqi NP_240010.1. NC_002528.1.

3D structure databases

ProteinModelPortali P57276.
SMRi P57276. Positions 5-737.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAB12896 ; BAB12896 ; BAB12896 .
GeneIDi 1109622.
KEGGi buc:BU179.
PATRICi 21243876. VBIBucAph127364_0190.

Phylogenomic databases

eggNOGi COG0209.
HOGENOMi HOG000278076.
KOi K00525.
OMAi LLWQMPS.
OrthoDBi EOG6J48HC.

Enzyme and pathway databases

UniPathwayi UPA00326 .
BioCyci BAPH107806:GBZJ-178-MONOMER.

Family and domain databases

InterProi IPR005144. ATP-cone.
IPR013346. NrdE_NrdA.
IPR000788. RNR_lg_C.
IPR013509. RNR_lsu_N.
IPR008926. RNR_R1-su_N.
[Graphical view ]
Pfami PF03477. ATP-cone. 1 hit.
PF02867. Ribonuc_red_lgC. 1 hit.
PF00317. Ribonuc_red_lgN. 1 hit.
[Graphical view ]
PRINTSi PR01183. RIBORDTASEM1.
SUPFAMi SSF48168. SSF48168. 1 hit.
TIGRFAMsi TIGR02506. NrdE_NrdA. 1 hit.
PROSITEi PS51161. ATP_CONE. 1 hit.
PS00089. RIBORED_LARGE. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Genome sequence of the endocellular bacterial symbiont of aphids Buchnera sp. APS."
    Shigenobu S., Watanabe H., Hattori M., Sakaki Y., Ishikawa H.
    Nature 407:81-86(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: APS.

Entry informationi

Entry nameiRIR1_BUCAI
AccessioniPrimary (citable) accession number: P57276
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: December 1, 2000
Last modified: October 29, 2014
This is version 94 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

Allosteric enzyme, Complete proteome, Reference proteome

Documents

  1. Buchnera aphidicola (subsp. Acyrthosiphon pisum)
    Buchnera aphidicola (subsp. Acyrthosiphon pisum): entries and gene names
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3