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Protein

Ribonucleoside-diphosphate reductase large subunit

Gene

rnr-1

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score: -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 to separate specificity and activation sites on the large 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 sitei11Allosteric activatorBy similarity1
Binding sitei59Allosteric activatorBy similarity1
Binding sitei94Allosteric activatorBy similarity1
Binding sitei208SubstrateBy similarity1
Sitei224Important for hydrogen atom transferBy similarity1
Sitei232Allosteric effector binding, determines substrate specificityBy similarity1
Binding sitei253Substrate; via amide nitrogenBy similarity1
Sitei262Allosteric effector binding, determines substrate specificityBy similarity1
Active sitei433Proton acceptorBy similarity1
Active sitei435Cysteine radical intermediateBy similarity1
Active sitei437Proton acceptorBy similarity1
Sitei450Important for hydrogen atom transferBy similarity1
Sitei743Important for electron transferBy similarity1
Sitei744Important for electron transferBy similarity1
Sitei783Interacts with thioredoxin/glutaredoxinBy similarity1
Sitei786Interacts with thioredoxin/glutaredoxinBy similarity1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionAllosteric enzyme, Oxidoreductase
Biological processDNA replication
LigandATP-binding, Nucleotide-binding

Enzyme and pathway databases

ReactomeiR-CEL-499943 Interconversion of nucleotide di- and triphosphates
UniPathwayiUPA00326

Names & Taxonomyi

Protein namesi
Recommended name:
Ribonucleoside-diphosphate reductase large subunit (EC:1.17.4.1)
Alternative name(s):
Ribonucleotide reductase large subunit
Gene namesi
Name:rnr-1
ORF Names:T23G5.1
OrganismiCaenorhabditis elegans
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
Proteomesi
  • UP000001940 Componenti: Chromosome III

Organism-specific databases

WormBaseiT23G5.1 ; CE00331 ; WBGene00004391 ; rnr-1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001871941 – 788Ribonucleoside-diphosphate reductase large subunitAdd BLAST788

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi224 ↔ 450Redox-activeBy similarity

Keywords - PTMi

Disulfide bond

Proteomic databases

EPDiQ03604
PaxDbiQ03604
PeptideAtlasiQ03604
PRIDEiQ03604

PTM databases

iPTMnetiQ03604

Expressioni

Gene expression databases

BgeeiWBGene00004391

Interactioni

Subunit structurei

Heterodimer of a large and a small subunit.

Protein-protein interaction databases

BioGridi41500, 3 interactors
DIPiDIP-26889N
IntActiQ03604, 3 interactors
STRINGi6239.T23G5.1.3

Structurei

3D structure databases

ProteinModelPortaliQ03604
SMRiQ03604
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini7 – 98ATP-conePROSITE-ProRule annotationAdd BLAST92

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni17 – 23Allosteric activator bindingBy similarity7
Regioni223 – 224Substrate bindingBy similarity2
Regioni291 – 294Allosteric effector binding, determines substrate specificityBy similarity4
Regioni433 – 437Substrate bindingBy similarity5
Regioni609 – 613Substrate bindingBy similarity5

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG1112 Eukaryota
COG0209 LUCA
GeneTreeiENSGT00910000144246
HOGENOMiHOG000057035
InParanoidiQ03604
KOiK10807
OMAiDRYFLHI
OrthoDBiEOG091G01XV
PhylomeDBiQ03604

Family and domain databases

InterProiView protein in InterPro
IPR005144 ATP-cone_dom
IPR013346 NrdE_NrdA
IPR000788 RNR_lg_C
IPR013509 RNR_lsu_N
IPR008926 RNR_R1-su_N
PfamiView protein in Pfam
PF03477 ATP-cone, 1 hit
PF02867 Ribonuc_red_lgC, 1 hit
PF00317 Ribonuc_red_lgN, 1 hit
PRINTSiPR01183 RIBORDTASEM1
SUPFAMiSSF48168 SSF48168, 1 hit
TIGRFAMsiTIGR02506 NrdE_NrdA, 1 hit
PROSITEiView protein in PROSITE
PS51161 ATP_CONE, 1 hit
PS00089 RIBORED_LARGE, 1 hit

Sequencei

Sequence statusi: Complete.

Q03604-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQRYNSTYVV KRDGRKEDVH FDKITSRIQK LSYGLNMDFV DPVAVAIKVI
60 70 80 90 100
SGLYKGVTTV ELDNLAAETA ASMTTQHPEY ALLAARIAVS NLHKKTNKVF
110 120 130 140 150
SEVMKTLHEF HHPHTGKHAP MISDETWAII EKNADKLNSA IVYDRDYSYT
160 170 180 190 200
YFGFKTLERS YLLKINKEIV ERPQQMLMRV SIGIHGDDIT SAIETYNLMS
210 220 230 240 250
ERYMTHASPT LFNSGTCRPQ MSSCFLLTMS EDSILGIYDT LKQCALISKS
260 270 280 290 300
AGGIGLNVHK IRATGSVIAG TNGTSNGLIP MLRVYNNTAR YVDQGGNKRP
310 320 330 340 350
GAFAIYLEPW HADIFEFVSL RKNTGPEEER ARDLFLALWI PDLFMKRVEK
360 370 380 390 400
DQEWSLMCPC ECPGLDDCWG EEFEALYAKY EAEGRVRKTV KARKLWEHIV
410 420 430 440 450
SNQIETGLPY ITYKDAANRK SNQQNLGTIK CSNLCTEIIE YSAPDEIAVC
460 470 480 490 500
NLASIALNRY VTPEKKFDFV KLAEVTKVIT RNLNKIIDVN YYPVEEARNS
510 520 530 540 550
NMRHRPIGLG VQGLADCFML MRYPFTSAEA RDLNKRIFET IYYAALEASC
560 570 580 590 600
ELAELNGPYS TYEGSPVSKG QLQFDMWGVT PTDQCDWATL RKKIAKHGIR
610 620 630 640 650
NSLLMAPMPT ASTAQILGNN ESIEPYTSNI YSRRVLSGDF QIVNPHMLKD
660 670 680 690 700
LVERGLWTDE MKNRLIANNG SIQNIDGIPS DIKELYRTVW EISQKDIIEM
710 720 730 740 750
AADRGAYIDQ SQSLNIHMAK PSYAGITSMH FYGWKKGLKT GMYYLRTKPA
760 770 780
VNAVQFTVDK NALKTNQQAE TPATVAESQD EGCLMCSG
Length:788
Mass (Da):88,970
Last modified:October 1, 1993 - v1
Checksum:iB1AF398B173407D4
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z19158 Genomic DNA Translation: CAA79574.1
PIRiS28302
RefSeqiNP_499039.1, NM_066638.4
UniGeneiCel.7791

Genome annotation databases

EnsemblMetazoaiT23G5.1.1; T23G5.1.1; WBGene00004391
T23G5.1.2; T23G5.1.2; WBGene00004391
GeneIDi176301
KEGGicel:CELE_T23G5.1
UCSCiT23G5.1.2 c. elegans

Similar proteinsi

Entry informationi

Entry nameiRIR1_CAEEL
AccessioniPrimary (citable) accession number: Q03604
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 1, 1993
Last sequence update: October 1, 1993
Last modified: May 23, 2018
This is version 138 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. SIMILARITY comments
    Index of protein domains and families

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