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Protein

Ribonucleoside-diphosphate reductase subunit alpha

Gene

nrdA

Organism
Buchnera aphidicola subsp. Schizaphis graminum (strain Sg)
Status
Reviewed-Annotation score: 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: 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
Binding sitei9Allosteric activatorBy similarity1
Binding sitei55Allosteric activatorBy similarity1
Binding sitei91Allosteric activatorBy similarity1
Binding sitei209SubstrateBy similarity1
Sitei225Important for hydrogen atom transferBy similarity1
Sitei232Allosteric effector bindingBy similarity1
Binding sitei253Substrate; via amide nitrogenBy similarity1
Sitei262Allosteric effector bindingBy similarity1
Active sitei437Proton acceptorBy similarity1
Active sitei439Cysteine radical intermediateBy similarity1
Active sitei441Proton acceptorBy similarity1
Sitei462Important for hydrogen atom transferBy similarity1
Sitei730Important for electron transferBy similarity1
Sitei731Important for electron transferBy similarity1
Sitei756Interacts with thioredoxin/glutaredoxinBy similarity1
Sitei761Interacts with thioredoxin/glutaredoxinBy similarity1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

DNA replication

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Enzyme and pathway databases

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 lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesErwiniaceaeBuchnera
Proteomesi
  • UP000000416 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001872071 – 763Ribonucleoside-diphosphate reductase subunit alphaAdd BLAST763

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
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.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini5 – 95ATP-conePROSITE-ProRule annotationAdd BLAST91

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni15 – 21Allosteric activator bindingBy similarity7
Regioni224 – 225Substrate bindingBy similarity2
Regioni437 – 441Substrate bindingBy similarity5
Regioni621 – 625Substrate bindingBy similarity5

Sequence similaritiesi

Contains 1 ATP-cone domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiENOG4105BZH. Bacteria.
COG0209. LUCA.
KOiK00525.
OMAiYELLWQM.
OrthoDBiPOG091H03NG.

Family and domain databases

InterProiIPR005144. ATP-cone_dom.
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:
EMBLi
GenBanki
DDBJi
Links Updated
AE013218 Genomic DNA. Translation: AAM67739.1.
RefSeqiWP_011053706.1. NC_004061.1.

Genome annotation databases

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

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE013218 Genomic DNA. Translation: AAM67739.1.
RefSeqiWP_011053706.1. NC_004061.1.

3D structure databases

ProteinModelPortaliQ8K9W3.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi198804.BUsg173.

Proteomic databases

PRIDEiQ8K9W3.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

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

Phylogenomic databases

eggNOGiENOG4105BZH. Bacteria.
COG0209. LUCA.
KOiK00525.
OMAiYELLWQM.
OrthoDBiPOG091H03NG.

Enzyme and pathway databases

UniPathwayiUPA00326.

Family and domain databases

InterProiIPR005144. ATP-cone_dom.
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]
ProtoNetiSearch...

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: November 2, 2016
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

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

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.