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Q8K9W3

- RIR1_BUCAP

UniProt

Q8K9W3 - RIR1_BUCAP

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Protein

Ribonucleoside-diphosphate reductase subunit alpha

Gene

nrdA

Organism
Buchnera aphidicola subsp. Schizaphis graminum (strain Sg)
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
Sitei756 – 7561Interacts with thioredoxin/glutaredoxinBy similarity
Sitei761 – 7611Interacts 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

BioCyciBAPH198804:GHMG-182-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:BUsg_173
OrganismiBuchnera aphidicola subsp. Schizaphis graminum (strain Sg)
Taxonomic identifieri198804 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeBuchnera
ProteomesiUP000000416: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 763763Ribonucleoside-diphosphate reductase subunit alphaPRO_0000187207Add
BLAST

Amino acid modifications

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

Keywords - PTMi

Disulfide bond

Proteomic databases

PRIDEiQ8K9W3.

Interactioni

Subunit structurei

Tetramer of two alpha and two beta subunits.By similarity

Protein-protein interaction databases

STRINGi198804.BUsg173.

Structurei

3D structure databases

ProteinModelPortaliQ8K9W3.
SMRiQ8K9W3. 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.
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.

Q8K9W3-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MKNSLFVTKR NGKKEKINLD KIHKVLNWAA KGLENISVSQ VELRSRIQFY
60 70 80 90 100
NNISTVNIHE TIIKAAADLI SENTPDYQYM AARLAIFHLR KKAYGQFEPP
110 120 130 140 150
NLYYHVKKMV QLGKYDEKLL QNYSFEEYVE MNSFVDHRRD MNFSYAAVKQ
160 170 180 190 200
LEAKYLLQNR VTGQIYESAQ FLYILISACL FSKYEKKVRM NYIQRFYNAI
210 220 230 240 250
STFKISLPTP IMSGVRTPTR QFSSCVLIEC ADNLNSINAT TSAIVKYVSQ
260 270 280 290 300
RAGIGINAGQ IRALGSPIRN GEAFHTGCIP FYKHFQSAVK SCSQGGVRGG
310 320 330 340 350
AATVFYPIWH LEIESLLVLK NNRGIEENRV RHLDYAVQIN KLMYQRMLLG
360 370 380 390 400
QKITLFSPSD VPKLYEFFFS DQKKFKEIYI KYEKNRNIRK KSINAIDLFC
410 420 430 440 450
LIMRERASTG RIYIQHVDHC NSHSAFNSKL ATIRQSNLCL EITLPTKPLN
460 470 480 490 500
NIDDKNGEIA LCTLSALNLG LINDLHDLKE LSTLSVRALD EILEYQNYPV
510 520 530 540 550
VCAKKSAISR RSLGIGVINF AYYLAKNKVR YSDGSAKNLT HKTFEAIQYY
560 570 580 590 600
LLKASCELAK EKGSCSLFNQ TNYYLGKFPI DTYKKDIDSI CNEPLHLNWN
610 620 630 640 650
LLRKKIKKYG LRNSTLSALM PSETSSQISN ATNGIEPPRG FISIKSSKDG
660 670 680 690 700
MLRQVVPEYK KLKSEYELLW EIPNNIGYLE LVAIMQKFVD QSISANTNYD
710 720 730 740 750
PKRFLNEKIP MKQLIYDLLV AYKLGIKTLY YQNTRDGAED NQNLNKSIEN
760
IKEDNCTSGS CTI
Length:763
Mass (Da):87,471
Last modified:October 1, 2002 - v1
Checksum:iBDE02289A8CF8D3D
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE013218 Genomic DNA. Translation: AAM67739.1.
RefSeqiNP_660528.1. NC_004061.1.
WP_011053706.1. NC_004061.1.

Genome annotation databases

EnsemblBacteriaiAAM67739; AAM67739; BUsg_173.
GeneIDi1005370.
KEGGibas:BUsg173.
PATRICi21247127. VBIBucAph100086_0177.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE013218 Genomic DNA. Translation: AAM67739.1 .
RefSeqi NP_660528.1. NC_004061.1.
WP_011053706.1. NC_004061.1.

3D structure databases

ProteinModelPortali Q8K9W3.
SMRi Q8K9W3. Positions 5-737.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 198804.BUsg173.

Proteomic databases

PRIDEi Q8K9W3.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAM67739 ; AAM67739 ; BUsg_173 .
GeneIDi 1005370.
KEGGi bas:BUsg173.
PATRICi 21247127. VBIBucAph100086_0177.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00326 .
BioCyci BAPH198804:GHMG-182-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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Sg.

Entry informationi

Entry nameiRIR1_BUCAP
AccessioniPrimary (citable) accession number: Q8K9W3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 15, 2002
Last sequence update: October 1, 2002
Last modified: October 29, 2014
This is version 93 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

Documents

  1. Buchnera aphidicola (subsp. Schizaphis graminum)
    Buchnera aphidicola (subsp. Schizaphis graminum): 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