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Protein

Ribonucleoside-diphosphate reductase subunit alpha

Gene

nrdE

Organism
Mycoplasma pneumoniae (strain ATCC 29342 / M129)
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. 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

Pathway: 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)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei159 – 1591SubstrateBy similarity
Sitei176 – 1761Important for hydrogen atom transferBy similarity
Sitei183 – 1831Allosteric effector bindingBy similarity
Binding sitei204 – 2041Substrate; via amide nitrogenBy similarity
Sitei213 – 2131Allosteric effector bindingBy similarity
Active sitei384 – 3841Proton acceptorBy similarity
Active sitei386 – 3861Cysteine radical intermediateBy similarity
Active sitei388 – 3881Proton acceptorBy similarity
Sitei413 – 4131Important for hydrogen atom transferBy similarity
Sitei694 – 6941Important for electron transferBy similarity
Sitei695 – 6951Important for electron transferBy similarity
Sitei716 – 7161Interacts with thioredoxin/glutaredoxinBy similarity
Sitei719 – 7191Interacts 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

BioCyciMPNE272634:GJ6Z-341-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:nrdE
Ordered Locus Names:MPN_324
ORF Names:MP512
OrganismiMycoplasma pneumoniae (strain ATCC 29342 / M129)
Taxonomic identifieri272634 [NCBI]
Taxonomic lineageiBacteriaTenericutesMollicutesMycoplasmataceaeMycoplasma
ProteomesiUP000000808 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 721721Ribonucleoside-diphosphate reductase subunit alphaPRO_0000187218Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi176 ↔ 413Redox-activeBy similarity

Keywords - PTMi

Disulfide bond

Proteomic databases

PaxDbiP78027.

Interactioni

Subunit structurei

Tetramer of two alpha and two beta subunits.By similarity

Protein-protein interaction databases

IntActiP78027. 7 interactions.

Structurei

3D structure databases

ProteinModelPortaliP78027.
SMRiP78027. Positions 18-700.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni175 – 1762Substrate bindingBy similarity
Regioni384 – 3885Substrate bindingBy similarity
Regioni589 – 5935Substrate bindingBy similarity

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0209.
KOiK00525.
OMAiIYFYTVT.
OrthoDBiEOG6J48HC.

Family and domain databases

InterProiIPR013346. NrdE_NrdA.
IPR026459. RNR_1b_NrdE.
IPR000788. RNR_lg_C.
IPR013509. RNR_lsu_N.
IPR013554. RNR_N.
IPR008926. RNR_R1-su_N.
[Graphical view]
PfamiPF02867. Ribonuc_red_lgC. 1 hit.
PF00317. Ribonuc_red_lgN. 1 hit.
PF08343. RNR_N. 1 hit.
[Graphical view]
PRINTSiPR01183. RIBORDTASEM1.
SUPFAMiSSF48168. SSF48168. 1 hit.
TIGRFAMsiTIGR02506. NrdE_NrdA. 1 hit.
TIGR04170. RNR_1b_NrdE. 1 hit.
PROSITEiPS00089. RIBORED_LARGE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P78027-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSVKEKIPAF NTQEDLESYI SLNAYTKVYG DFKMDLHAVE AYIQEHVKPK
60 70 80 90 100
TKVFHSTKER LDFLVKNDYY DENIINMYSF EQFEEITRKA YAYRFRYANF
110 120 130 140 150
MGAFKFYNAY ALKTFDGKWY LENYEDRVVM NVLFLANGNY NKALKLLKQI
160 170 180 190 200
ITNRFQPATP TFLNAGRKKR GEFVSCYLLR IEDNMESIGR AITTTLQLSK
210 220 230 240 250
RDGGVALLLT NIRESGAPIK KIENQSSGII PIMKLLEDSF SYANQLGQRQ
260 270 280 290 300
GAGAVYLHAH HPDVMQFLDT KRENADEKIR IKSLSLGLVI PDITFTLAKN
310 320 330 340 350
NEEMALFSPY DVYEEYGKPL SDISVTEMYY ELLANQRIKK TFINARKFFQ
360 370 380 390 400
TVAELHFESG YPYILFDDTV NRRNAHPNRI VMSNLCSEIV QPSTPSEFHH
410 420 430 440 450
DLAFKKVGND ISCNLGSLNI AKAMESGPEF SELVKLAIES LDLVSRVSNL
460 470 480 490 500
ETAPSIQKGN SENHALGLGA MNLHGFLATN QIYYNSPEAI DFTNIFFYTV
510 520 530 540 550
AYHAFKASSE LALEKGKFKN FENTKFADGS YFDKYIKVEP DFWTPKTERV
560 570 580 590 600
KALFQKYQVE IPTRENWKEL ALNIQKNGLA NSHLLAIAPT GSISYLSSCT
610 620 630 640 650
PSLQPVVSPV EVRKEGRLGR IYVPAYQLNK DSYPFYKDGA YELGPEPIIN
660 670 680 690 700
IAAAAQQHVD QAISLTLFMT DKATTRDLNK AYIYAFKKGC SSIYYVRVRQ
710 720
EVLEDSEDHT IQMQQCEACV I
Length:721
Mass (Da):82,375
Last modified:February 1, 1997 - v1
Checksum:i93CAEA95A2A9E647
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00089 Genomic DNA. Translation: AAB96160.1.
PIRiS73838.
RefSeqiNP_110012.1. NC_000912.1.
WP_010874680.1. NC_000912.1.

Genome annotation databases

EnsemblBacteriaiAAB96160; AAB96160; MPN_324.
GeneIDi876946.
KEGGimpn:MPN324.
PATRICi20022002. VBIMycPne110_0348.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00089 Genomic DNA. Translation: AAB96160.1.
PIRiS73838.
RefSeqiNP_110012.1. NC_000912.1.
WP_010874680.1. NC_000912.1.

3D structure databases

ProteinModelPortaliP78027.
SMRiP78027. Positions 18-700.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiP78027. 7 interactions.

Proteomic databases

PaxDbiP78027.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAB96160; AAB96160; MPN_324.
GeneIDi876946.
KEGGimpn:MPN324.
PATRICi20022002. VBIMycPne110_0348.

Phylogenomic databases

eggNOGiCOG0209.
KOiK00525.
OMAiIYFYTVT.
OrthoDBiEOG6J48HC.

Enzyme and pathway databases

UniPathwayiUPA00326.
BioCyciMPNE272634:GJ6Z-341-MONOMER.

Family and domain databases

InterProiIPR013346. NrdE_NrdA.
IPR026459. RNR_1b_NrdE.
IPR000788. RNR_lg_C.
IPR013509. RNR_lsu_N.
IPR013554. RNR_N.
IPR008926. RNR_R1-su_N.
[Graphical view]
PfamiPF02867. Ribonuc_red_lgC. 1 hit.
PF00317. Ribonuc_red_lgN. 1 hit.
PF08343. RNR_N. 1 hit.
[Graphical view]
PRINTSiPR01183. RIBORDTASEM1.
SUPFAMiSSF48168. SSF48168. 1 hit.
TIGRFAMsiTIGR02506. NrdE_NrdA. 1 hit.
TIGR04170. RNR_1b_NrdE. 1 hit.
PROSITEiPS00089. RIBORED_LARGE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Complete sequence analysis of the genome of the bacterium Mycoplasma pneumoniae."
    Himmelreich R., Hilbert H., Plagens H., Pirkl E., Li B.-C., Herrmann R.
    Nucleic Acids Res. 24:4420-4449(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 29342 / M129.

Entry informationi

Entry nameiRIR1_MYCPN
AccessioniPrimary (citable) accession number: P78027
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: February 1, 1997
Last modified: June 24, 2015
This is version 101 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, Reference proteome

Documents

  1. Mycoplasma pneumoniae
    Mycoplasma pneumoniae (strain M129): entries and gene names
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. 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.