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Protein

Nodulation protein D 3

Gene

nodD3

Organism
Mesorhizobium japonicum (strain LMG 29417 / CECT 9101 / MAFF 303099) (Mesorhizobium loti (strain MAFF 303099))
Status
Reviewed-Annotation score: -Protein inferred from homologyi

Functioni

NodD regulates the expression of the nodABCFE genes which encode other nodulation proteins. NodD is also a negative regulator of its own expression. Binds flavonoids as inducers.

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
DNA bindingi23 – 43H-T-H motifPROSITE-ProRule annotationAdd BLAST21

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionActivator, DNA-binding, Repressor
Biological processNodulation, Transcription, Transcription regulation

Enzyme and pathway databases

BioCyciMLOT266835:G1G20-4944-MONOMER

Names & Taxonomyi

Protein namesi
Recommended name:
Nodulation protein D 3
Gene namesi
Name:nodD3
Ordered Locus Names:mlr6182
OrganismiMesorhizobium japonicum (strain LMG 29417 / CECT 9101 / MAFF 303099) (Mesorhizobium loti (strain MAFF 303099))
Taxonomic identifieri266835 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesPhyllobacteriaceaeMesorhizobium
Proteomesi
  • UP000000552 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001057111 – 301Nodulation protein D 3Add BLAST301

Proteomic databases

PRIDEiQ52779

Interactioni

Protein-protein interaction databases

STRINGi266835.mlr6182

Structurei

3D structure databases

ProteinModelPortaliQ52779
SMRiQ52779
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini6 – 63HTH lysR-typePROSITE-ProRule annotationAdd BLAST58

Sequence similaritiesi

Phylogenomic databases

eggNOGiENOG4108PTX Bacteria
ENOG410XTAZ LUCA
HOGENOMiHOG000103695
KOiK14657
OMAiNTDPGNI
OrthoDBiPOG091H0FQL

Family and domain databases

CDDicd08462 PBP2_NodD, 1 hit
Gene3Di1.10.10.10, 1 hit
InterProiView protein in InterPro
IPR005119 LysR_subst-bd
IPR037416 NodD_PBP2
IPR000847 Tscrpt_reg_HTH_LysR
IPR036388 WH-like_DNA-bd_sf
IPR036390 WH_DNA-bd_sf
PfamiView protein in Pfam
PF00126 HTH_1, 1 hit
PF03466 LysR_substrate, 1 hit
PRINTSiPR00039 HTHLYSR
SUPFAMiSSF46785 SSF46785, 1 hit
PROSITEiView protein in PROSITE
PS50931 HTH_LYSR, 1 hit

Sequencei

Sequence statusi: Complete.

Q52779-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MRFKGLDLNL LVVLDALLTA RNLTAAASSI NLSQPAMSAA VARLRNYFND
60 70 80 90 100
ELFTMSGRER VLTPRAETLA PAVRGALLHI QCSIISWDPF NPAQSDRRFR
110 120 130 140 150
IILSDFATLV FFEKVVERVA REAPAVSFEL RPLDNDPDEL LRRGDVDFVI
160 170 180 190 200
LPEFFMSSAH PRAALFDETF VCVGCPTNKQ LPRQLTFERY VSMKHIAFRV
210 220 230 240 250
GGAQMPSIEE QFLLEHGLKR RVEIVVQAFS MIPPMVSGTA RIATMPFRLV
260 270 280 290 300
QHFKKTFPLR IIELPRPLPT FTEAVQWPTL HNSDPASIWM RQIMLQEASR

M
Length:301
Mass (Da):34,224
Last modified:June 1, 2001 - v2
Checksum:iF1C49282BBE2CE61
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti135N → H in AAB50274 (PubMed:8850088).Curated1
Sequence conflicti149V → L in AAB50274 (PubMed:8850088).Curated1
Sequence conflicti180Q → E in AAB50274 (PubMed:8850088).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U22899 Genomic DNA Translation: AAB50274.1
BA000012 Genomic DNA Translation: BAB52515.1
PIRiS21410
RefSeqiWP_010913836.1, NC_002678.2

Genome annotation databases

EnsemblBacteriaiBAB52515; BAB52515; BAB52515
KEGGimlo:mlr6182

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U22899 Genomic DNA Translation: AAB50274.1
BA000012 Genomic DNA Translation: BAB52515.1
PIRiS21410
RefSeqiWP_010913836.1, NC_002678.2

3D structure databases

ProteinModelPortaliQ52779
SMRiQ52779
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi266835.mlr6182

Proteomic databases

PRIDEiQ52779

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAB52515; BAB52515; BAB52515
KEGGimlo:mlr6182

Phylogenomic databases

eggNOGiENOG4108PTX Bacteria
ENOG410XTAZ LUCA
HOGENOMiHOG000103695
KOiK14657
OMAiNTDPGNI
OrthoDBiPOG091H0FQL

Enzyme and pathway databases

BioCyciMLOT266835:G1G20-4944-MONOMER

Family and domain databases

CDDicd08462 PBP2_NodD, 1 hit
Gene3Di1.10.10.10, 1 hit
InterProiView protein in InterPro
IPR005119 LysR_subst-bd
IPR037416 NodD_PBP2
IPR000847 Tscrpt_reg_HTH_LysR
IPR036388 WH-like_DNA-bd_sf
IPR036390 WH_DNA-bd_sf
PfamiView protein in Pfam
PF00126 HTH_1, 1 hit
PF03466 LysR_substrate, 1 hit
PRINTSiPR00039 HTHLYSR
SUPFAMiSSF46785 SSF46785, 1 hit
PROSITEiView protein in PROSITE
PS50931 HTH_LYSR, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiNODD3_RHILO
AccessioniPrimary (citable) accession number: Q52779
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: June 1, 2001
Last modified: October 10, 2018
This is version 105 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
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Main funding by: National Institutes of Health

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