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

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 sitei6Allosteric activatorBy similarity1
Binding sitei52Allosteric activatorBy similarity1
Binding sitei200SubstrateBy similarity1
Sitei216Important for hydrogen atom transferBy similarity1
Sitei223Allosteric effector bindingBy similarity1
Binding sitei244Substrate; via amide nitrogenBy similarity1
Sitei253Allosteric effector bindingBy similarity1
Active sitei424Proton acceptorBy similarity1
Active sitei426Cysteine radical intermediateBy similarity1
Active sitei428Proton acceptorBy similarity1
Sitei497Important for hydrogen atom transferBy similarity1
Sitei763Important for electron transferBy similarity1
Sitei764Important for electron transferBy similarity1
Sitei784Interacts with thioredoxin/glutaredoxinBy similarity1
Sitei787Interacts 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:jhp_0621
OrganismiHelicobacter pylori (strain J99 / ATCC 700824) (Campylobacter pylori J99)
Taxonomic identifieri85963 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaEpsilonproteobacteriaCampylobacteralesHelicobacteraceaeHelicobacter
Proteomesi
  • UP000000804 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001872161 – 788Ribonucleoside-diphosphate reductase subunit alphaAdd BLAST788

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
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)DescriptionActionsGraphical viewLength
Domaini2 – 92ATP-conePROSITE-ProRule annotationAdd BLAST91

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni12 – 18Allosteric activator bindingBy similarity7
Regioni215 – 216Substrate bindingBy similarity2
Regioni424 – 428Substrate bindingBy similarity5
Regioni659 – 663Substrate bindingBy similarity5

Sequence similaritiesi

Contains 1 ATP-cone domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiENOG4105BZH. Bacteria.
COG0209. LUCA.
KOiK00525.
OMAiTLFMTDK.
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.

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. NZ_CP011330.1.

Genome annotation databases

EnsemblBacteriaiAAD06201; AAD06201; jhp_0621.
KEGGihpj:jhp_0621.
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. NZ_CP011330.1.

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:jhp_0621.
PATRICi20605953. VBIHelPyl98156_0682.

Phylogenomic databases

eggNOGiENOG4105BZH. Bacteria.
COG0209. LUCA.
KOiK00525.
OMAiTLFMTDK.
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_HELPJ
AccessioniPrimary (citable) accession number: Q9ZLF9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: May 1, 1999
Last modified: November 2, 2016
This is version 115 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

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.