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Protein

Ribonucleoside-diphosphate reductase subunit alpha

Gene

NRDA

Organism
Enterobacteria phage T4 (Bacteriophage T4)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Protein inferred from homologyi

Functioni

Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides.

Catalytic activityi

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

Enzyme regulationi

Under complex allosteric control mediated by deoxynucleoside triphosphates and ATP binding. 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 (By similarity).By similarity

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei206 – 2061SubstrateBy similarity
Sitei222 – 2221Important for hydrogen atom transferBy similarity
Sitei229 – 2291Allosteric effector bindingBy similarity
Binding sitei250 – 2501Substrate; via amide nitrogenBy similarity
Sitei259 – 2591Allosteric effector bindingBy similarity
Active sitei435 – 4351Proton acceptorBy similarity
Active sitei437 – 4371Cysteine radical intermediateBy similarity
Active sitei439 – 4391Proton acceptorBy similarity
Sitei457 – 4571Important for hydrogen atom transferBy similarity
Sitei726 – 7261Important for electron transferBy similarity
Sitei727 – 7271Important for electron transferBy similarity
Sitei749 – 7491Interacts with thioredoxin/glutaredoxinBy similarity
Sitei752 – 7521Interacts 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

UniPathwayiUPA00326.

Names & Taxonomyi

Protein namesi
Recommended name:
Ribonucleoside-diphosphate reductase subunit alpha (EC:1.17.4.1)
Alternative name(s):
Protein B1
Ribonucleotide reductase
Gene namesi
Name:NRDA
OrganismiEnterobacteria phage T4 (Bacteriophage T4)
Taxonomic identifieri10665 [NCBI]
Taxonomic lineageiVirusesdsDNA viruses, no RNA stageCaudoviralesMyoviridaeTevenvirinaeT4likevirus
Virus hostiEscherichia coli [TaxID: 562]
ProteomesiUP000009087 Componenti: Genome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 754754Ribonucleoside-diphosphate reductase subunit alphaPRO_0000187226Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi222 ↔ 457Redox-activeBy similarity

Keywords - PTMi

Disulfide bond

Interactioni

Subunit structurei

Heterodimer of a large and a small subunit.

Structurei

3D structure databases

ProteinModelPortaliP32282.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini4 – 9390ATP-conePROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni221 – 2222Substrate bindingBy similarity
Regioni435 – 4395Substrate bindingBy similarity
Regioni615 – 6195Substrate bindingBy similarity

Sequence similaritiesi

Contains 1 ATP-cone domain.PROSITE-ProRule annotation

Phylogenomic databases

KOiK00525.

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.

P32282-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQLINVIKSS GVSQSFDPQK IIKVLSWAAE GTSVDPYELY ENIKSYLRDG
60 70 80 90 100
MTTDDIQTIV IKAAANSISV EEPDYQYVAA RCLMFALRKH VYGQYEPRSF
110 120 130 140 150
IDHISYCVNA GKYDPELLSK YSAEEITFLE SKIKHERDME FTYSGAMQLK
160 170 180 190 200
EKYLVKDKTT GQIYETPQFA FMTIGMALHQ DEPVDRLKHV IRFYEAVSTR
210 220 230 240 250
QISLPTPIMA GCRTPTRQFS SCVVIEAGDS LKSINKASAS IVEYISKRAG
260 270 280 290 300
IGINVGMIRA EGSKIGMGEV RHTGVIPFWK HFQTAVKSCS QGGIRGGAAT
310 320 330 340 350
AYYPIWHLEV ENLLVLKNNK GVEENRIRHM DYGVQLNDLM MERFGKNDYI
360 370 380 390 400
TLFSPHEMGG ELYYSYFKDQ DRFRELYEAA EKDPNIRKKR IKARELFELL
410 420 430 440 450
MTERSGTARI YVQFIDNTNN YTPFIREKAP IRQSNLCCEI AIPTNDVNSP
460 470 480 490 500
DAEIGLCTLS AFVLDNFDWQ DQDKINELAE VQVRALDNLL DYQGYPVPEA
510 520 530 540 550
EKAKKRRNLG VGVTNYAAWL ASNFASYEDA NDLTHELFER LQYGLIKASI
560 570 580 590 600
KLAKEKGPSE YYSDTRWSRG ELPIDWYNKK IDQIAAPKYV CDWSALREDL
610 620 630 640 650
KLFGIRNSTL SALMPCESSS QVSNSTNGYE PPRGPVSVKE SKEGSFNQVV
660 670 680 690 700
PNIEHNIDLY DYTWKLAKKG NKPYLTQVAI MLKWVCQSAS ANTYYDPQIF
710 720 730 740 750
PKGKVPMSIM IDDMLYGWYY GIKNFYYHNT RDGSGTDDYE IETPKADDCA

ACKL
Length:754
Mass (Da):85,973
Last modified:September 30, 1993 - v1
Checksum:i31D178EAA580068A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J03968 Genomic DNA. Translation: AAA32527.1.
AF158101 Genomic DNA. Translation: AAD42621.1.
M22627 Genomic DNA. Translation: AAA32531.1.
RefSeqiNP_049845.1. NC_000866.4.

Genome annotation databases

GeneIDi1258795.
KEGGivg:1258795.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J03968 Genomic DNA. Translation: AAA32527.1.
AF158101 Genomic DNA. Translation: AAD42621.1.
M22627 Genomic DNA. Translation: AAA32531.1.
RefSeqiNP_049845.1. NC_000866.4.

3D structure databases

ProteinModelPortaliP32282.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi1258795.
KEGGivg:1258795.

Phylogenomic databases

KOiK00525.

Enzyme and pathway databases

UniPathwayiUPA00326.

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]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Total sequence, flanking regions, and transcripts of bacteriophage T4 nrdA gene, coding for alpha chain of ribonucleoside diphosphate reductase."
    Tseng M.J., Hilfinger J.M., Walsh A., Greenberg G.R.
    J. Biol. Chem. 263:16242-16251(1987) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  3. "Localization of the T4 phage ribonucleotide reductase B1 subunit gene and the nucleotide sequence of its upstream and 5' coding regions."
    Chu F.K., Maley G.F., Wang A.M., Maley F.
    Gene 57:143-148(1986) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-66.

Entry informationi

Entry nameiRIR1_BPT4
AccessioniPrimary (citable) accession number: P32282
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 30, 1993
Last sequence update: September 30, 1993
Last modified: March 31, 2015
This is version 96 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Allosteric enzyme, Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.