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

Nodulation protein D 1

Gene

nodD1

Organism
Rhizobium sp. (strain NGR234)
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Protein inferred from homologyi

Functioni

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

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi23 – 4220H-T-H motifPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  1. DNA binding Source: UniProtKB-KW
  2. sequence-specific DNA binding transcription factor activity Source: InterPro

GO - Biological processi

  1. nodulation Source: UniProtKB-KW
  2. transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Activator, Repressor

Keywords - Biological processi

Nodulation, Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

BioCyciSFRE394:GBYN-6087-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Nodulation protein D 1
Gene namesi
Name:nodD1
Ordered Locus Names:NGR_a00360
ORF Names:y4aL
Encoded oniPlasmid sym pNGR234a0 Publication
OrganismiRhizobium sp. (strain NGR234)
Taxonomic identifieri394 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesRhizobiaceaeSinorhizobium/Ensifer groupSinorhizobium
ProteomesiUP000001054 Componenti: Plasmid sym pNGR234a

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 322322Nodulation protein D 1PRO_0000105721Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi394.NGR_a00360.

Structurei

3D structure databases

ProteinModelPortaliP55359.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini6 – 6358HTH lysR-typePROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 HTH lysR-type DNA-binding domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiCOG0583.
HOGENOMiHOG000103695.
KOiK14657.
OMAiNTDPGNI.
OrthoDBiEOG6N0HGT.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
InterProiIPR005119. LysR_subst-bd.
IPR000847. Tscrpt_reg_HTH_LysR.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF00126. HTH_1. 1 hit.
PF03466. LysR_substrate. 1 hit.
[Graphical view]
PRINTSiPR00039. HTHLYSR.
PROSITEiPS50931. HTH_LYSR. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P55359-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRFKGLDLNL LVALDALMTE RKLTAAARSI NLSQPAMSAA ITRLRTYFRD
60 70 80 90 100
ELFTMNGREL VPTPRAEALA PAVREALLHI HLSIISWDPF NPAQSDRSFR
110 120 130 140 150
IILSDFMTLM FLERVVVRVA REAPAVSFEL LPFSDEPDEL LRRGDVDFLI
160 170 180 190 200
LPEMFMSHTH PRAKLFDERF VCVSCPTNQK LPPQLSIDNY VSMGHVAAQF
210 220 230 240 250
GKQRPSVEEW LLREHGLRRR VEVAVPGFTM IPSFLSGTDR IATLPLRLAM
260 270 280 290 300
HFAKAIPLRI TELPQPIFPA FTEAVQWPAP HSSDPASLWM REIFLQEASR
310 320
VEFQSETSAH ALSKADGAIR HP
Length:322
Mass (Da):36,460
Last modified:November 1, 1997 - v1
Checksum:i07D3BFA31983C233
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00090 Genomic DNA. Translation: AAB91609.1.
RefSeqiNP_443771.1. NC_000914.2.
WP_010875078.1. NC_000914.2.

Genome annotation databases

EnsemblBacteriaiAAB91609; AAB91609; NGR_a00360.
GeneIDi962176.
KEGGirhi:NGR_a00360.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00090 Genomic DNA. Translation: AAB91609.1.
RefSeqiNP_443771.1. NC_000914.2.
WP_010875078.1. NC_000914.2.

3D structure databases

ProteinModelPortaliP55359.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi394.NGR_a00360.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAB91609; AAB91609; NGR_a00360.
GeneIDi962176.
KEGGirhi:NGR_a00360.

Phylogenomic databases

eggNOGiCOG0583.
HOGENOMiHOG000103695.
KOiK14657.
OMAiNTDPGNI.
OrthoDBiEOG6N0HGT.

Enzyme and pathway databases

BioCyciSFRE394:GBYN-6087-MONOMER.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
InterProiIPR005119. LysR_subst-bd.
IPR000847. Tscrpt_reg_HTH_LysR.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF00126. HTH_1. 1 hit.
PF03466. LysR_substrate. 1 hit.
[Graphical view]
PRINTSiPR00039. HTHLYSR.
PROSITEiPS50931. HTH_LYSR. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Molecular basis of symbiosis between Rhizobium and legumes."
    Freiberg C.A., Fellay R., Bairoch A., Broughton W.J., Rosenthal A., Perret X.
    Nature 387:394-401(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: NGR234.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: NGR234.

Entry informationi

Entry nameiNODD1_RHISN
AccessioniPrimary (citable) accession number: P55359
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1997
Last modified: March 4, 2015
This is version 78 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

Complete proteome, Plasmid, Reference proteome

Documents

  1. Rhizobium plasmid pNGR234a
    Rhizobium plasmid pNGR234a: entries and gene names
  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.