Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Ribonucleoside-diphosphate reductase subunit alpha

Gene

nrdA

Organism
Helicobacter pylori (strain J99 / ATCC 700824) (Campylobacter pylori J99)
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

Pathway:iDNA 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)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei6 – 61Allosteric activatorBy similarity
Binding sitei52 – 521Allosteric activatorBy similarity
Binding sitei200 – 2001SubstrateBy similarity
Sitei216 – 2161Important for hydrogen atom transferBy similarity
Sitei223 – 2231Allosteric effector bindingBy similarity
Binding sitei244 – 2441Substrate; via amide nitrogenBy similarity
Sitei253 – 2531Allosteric effector bindingBy similarity
Active sitei424 – 4241Proton acceptorBy similarity
Active sitei426 – 4261Cysteine radical intermediateBy similarity
Active sitei428 – 4281Proton acceptorBy similarity
Sitei497 – 4971Important for hydrogen atom transferBy similarity
Sitei763 – 7631Important for electron transferBy similarity
Sitei764 – 7641Important for electron transferBy similarity
Sitei784 – 7841Interacts with thioredoxin/glutaredoxinBy similarity
Sitei787 – 7871Interacts with thioredoxin/glutaredoxinBy similarity

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

BioCyciHPYL85963:GJB9-632-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:jhp_0621
OrganismiHelicobacter pylori (strain J99 / ATCC 700824) (Campylobacter pylori J99)
Taxonomic identifieri85963 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaEpsilonproteobacteriaCampylobacteralesHelicobacteraceaeHelicobacter
ProteomesiUP000000804 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 788788Ribonucleoside-diphosphate reductase subunit alphaPRO_0000187216Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi216 ↔ 497Redox-activeBy similarity

Keywords - PTMi

Disulfide bond

Interactioni

Subunit structurei

Tetramer of two alpha and two beta subunits.By similarity

Protein-protein interaction databases

STRINGi85963.jhp0621.

Structurei

3D structure databases

ProteinModelPortaliQ9ZLF9.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini2 – 9291ATP-conePROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni12 – 187Allosteric activator bindingBy similarity
Regioni215 – 2162Substrate bindingBy similarity
Regioni424 – 4285Substrate bindingBy similarity
Regioni659 – 6635Substrate bindingBy similarity

Sequence similaritiesi

Contains 1 ATP-cone domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiCOG0209.
KOiK00525.
OMAiIYFYTVT.
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.

Q9ZLF9-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MITVVKRNGR IEPLDITKIQ KYTKDATDNL EGVSQSELEV DARLQFRDKI
60 70 80 90 100
TTEEIQQTLI KTAVDKIDID TPNWSFVASR LFLYDLYHKV SGFTGYRHLK
110 120 130 140 150
EYFENAEEKG RILKGFKEKF DLEFLNSQIK PERDFQFNYL GIKTLYDRYL
160 170 180 190 200
LKDANNHPIE LPQHMFMSIA MFLAQNEQEL NKIALEFYEV LSKFEAMCAT
210 220 230 240 250
PTLANARTTK HQLSSCYIGS TPDNIEGIFD SYKEMALLSK YGGGIGWDFS
260 270 280 290 300
LVRSIGSYID GHKNASAGTI PFLKIANDVA IAVDQLGTRK GAIAVYLEIW
310 320 330 340 350
HIDVMEFIDL RKNSGDERRR AHDLFPALWV CDLFMKRVLE DAMWTLFDPY
360 370 380 390 400
ECKDLTELYG QDFEKRYLEY EKDPKIIKEY INAKDLWKKI LMNYFEAGLP
410 420 430 440 450
FLAFKDNANR CNPNAHAGII RSSNLCTEIF QNTAPNHYYM QIEYTDGAIE
460 470 480 490 500
FFEEKELVTT DSNITKCANK LTSTDILKGK KIYIATKVAK DGQTAVCNLA
510 520 530 540 550
SINLSKINTE EDIKRVVPIM VRLLDNVIDL NFYPNRKVKA TNLQNRAIGL
560 570 580 590 600
GVMGEAQMLA EHQIAWGSKE HLEKIDALME QISYHAIDTS ANLAKEKGVY
610 620 630 640 650
KDFENSEWSK GIFPIDKANN EALKLTEKGL FNHACDWQGL REKVKANGMR
660 670 680 690 700
NGYLMAIAPT SSISILVGTT QTIEPIYKKK WFEENLSGLI PVVVPNLNVE
710 720 730 740 750
TWNFYTSAYD IDAKDLIKAA AVRQKWIDQG QSINVFLRIE NASGKTLHEI
760 770 780
YTLAWKLGLK STYYLRSESP SIDEKSVLDR SVECFNCQ
Length:788
Mass (Da):90,232
Last modified:May 1, 1999 - v1
Checksum:iA98AFCBC5CC6398E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE001439 Genomic DNA. Translation: AAD06201.1.
PIRiF71908.
RefSeqiWP_000633948.1. NC_000921.1.

Genome annotation databases

EnsemblBacteriaiAAD06201; AAD06201; jhp_0621.
KEGGihpj:jhp0621.
PATRICi20605953. VBIHelPyl98156_0682.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE001439 Genomic DNA. Translation: AAD06201.1.
PIRiF71908.
RefSeqiWP_000633948.1. NC_000921.1.

3D structure databases

ProteinModelPortaliQ9ZLF9.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi85963.jhp0621.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAD06201; AAD06201; jhp_0621.
KEGGihpj:jhp0621.
PATRICi20605953. VBIHelPyl98156_0682.

Phylogenomic databases

eggNOGiCOG0209.
KOiK00525.
OMAiIYFYTVT.
OrthoDBiEOG6J48HC.

Enzyme and pathway databases

UniPathwayiUPA00326.
BioCyciHPYL85963:GJB9-632-MONOMER.

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

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: J99 / ATCC 700824.

Entry informationi

Entry nameiRIR1_HELPJ
AccessioniPrimary (citable) accession number: Q9ZLF9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: May 1, 1999
Last modified: July 22, 2015
This is version 109 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. 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.