PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Traes_3B_089C0C2EB.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Triticodae; Triticeae; Triticinae; Triticum
Family bHLH
Protein Properties Length: 244aa    MW: 27152.8 Da    PI: 7.1009
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Traes_3B_089C0C2EB.1genomeIWGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH41.72.1e-1370121155
                           CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
                   HLH   1 rrrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                           r+ +hn+ Er RR+++N+ ++ Lr+llP++   + +Kls   ++ ++ +YI +Lq
  Traes_3B_089C0C2EB.1  70 RKISHNAYERDRRKELNELYSDLRSLLPED---DRTKLSIPITVSRVLKYIPELQ 121
                           6889*************************9...9******************998 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF474592.09E-1568137IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088813.31369120IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000833.29E-1069125No hitNo description
PfamPF000101.3E-1070121IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.101.8E-1270136IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003537.0E-875126IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 244 aa     Download sequence    Send to blast
MGHHYQLFED PFASSMSLLE PDIFSGTGVH HHLAPSMQWL GLGNHGIPVA PTVNNGTSSG  60
GDGDGSGSHR KISHNAYERD RRKELNELYS DLRSLLPEDD RTKLSIPITV SRVLKYIPEL  120
QKQVEGLEKK KEELTRASCK PGVLTMRENT APIVSATCID DRDIMVQVGL VSTMAGDLPL  180
SKCINVLENE GLRLISSSTS AFQNRTFYSL HLQRTQRTMS KECPAFCEEL ENVMKQKAGV  240
RLHH
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that binds to the DNA motif 5'-CACGTGG-3' in the promoter of iron (Fe) deficiency-inducible genes as well as of genes involved in iron homeostasis, thus contributing to basal tolerance to iron deficiency, iron uptake from soil and iron transport, particularly during seed maturation and germination (PubMed:16887895, PubMed:17559517, PubMed:21331630, PubMed:26224556). Promotes the accumulation of mugineic acid family phytosiderophores (MAs) (PubMed:17559517). Required for ethylene-mediated signaling during iron deficiency responses (PubMed:21112958). Improves growth and yield, especially in calcareous soil with low iron availability. Promotes iron concentration in shoots and grain (PubMed:21331630). {ECO:0000269|PubMed:16887895, ECO:0000269|PubMed:17559517, ECO:0000269|PubMed:21112958, ECO:0000269|PubMed:21331630, ECO:0000269|PubMed:26224556}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Strongly induced in both roots and shoots during iron (Fe) deficiency stress (PubMed:16887895, PubMed:18025467, PubMed:19737364, PubMed:21112958, PubMed:21331630, PubMed:24280375). Ethylene enhances the iron deficiency-mediated induction (PubMed:21112958). Induced by arsenate (AsV25 and AsV50); this induction is repressed by nitric oxide (NO) (PubMed:26793232). Accumulates under cadmium (Cd) stress; this induction is inhibited by the DNA methyltransferase inhibitor 5-aza-2-deoxycytidine (Aza) (PubMed:27412910). {ECO:0000269|PubMed:16887895, ECO:0000269|PubMed:18025467, ECO:0000269|PubMed:19737364, ECO:0000269|PubMed:21112958, ECO:0000269|PubMed:21331630, ECO:0000269|PubMed:24280375, ECO:0000269|PubMed:26793232, ECO:0000269|PubMed:27412910}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHE9962990.0HE996299.1 Triticum aestivum cv. Arina SNP, chromosome 3B, clone Taes_arina_ctg_160787.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020193392.11e-164transcription factor ORG2-like
SwissprotQ0JFZ03e-92IRO2_ORYSJ; Protein IRON-RELATED TRANSCRIPTION FACTOR 2
TrEMBLA0A3B6FXS91e-170A0A3B6FXS9_WHEAT; Uncharacterized protein
TrEMBLA0A446QG281e-170A0A446QG28_TRITD; Uncharacterized protein
STRINGTraes_3B_089C0C2EB.21e-171(Triticum aestivum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP32803472
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G56970.12e-29bHLH family protein
Publications ? help Back to Top
  1. Ogo Y, et al.
    The rice bHLH protein OsIRO2 is an essential regulator of the genes involved in Fe uptake under Fe-deficient conditions.
    Plant J., 2007. 51(3): p. 366-77
    [PMID:17559517]
  2. Kobayashi T, et al.
    The rice transcription factor IDEF1 is essential for the early response to iron deficiency, and induces vegetative expression of late embryogenesis abundant genes.
    Plant J., 2009. 60(6): p. 948-61
    [PMID:19737364]
  3. Wu J, et al.
    Ethylene is involved in the regulation of iron homeostasis by regulating the expression of iron-acquisition-related genes in Oryza sativa.
    J. Exp. Bot., 2011. 62(2): p. 667-74
    [PMID:21112958]
  4. Ogo Y, et al.
    OsIRO2 is responsible for iron utilization in rice and improves growth and yield in calcareous soil.
    Plant Mol. Biol., 2011. 75(6): p. 593-605
    [PMID:21331630]
  5. Brenchley R, et al.
    Analysis of the bread wheat genome using whole-genome shotgun sequencing.
    Nature, 2012. 491(7426): p. 705-10
    [PMID:23192148]
  6. Yang A,Li Y,Xu Y,Xu Y,Zhang WH
    A receptor-like protein RMC is involved in regulation of iron acquisition in rice.
    J. Exp. Bot., 2013. 64(16): p. 5009-20
    [PMID:24014863]
  7. Itai RN,Ogo Y,Kobayashi T,Nakanishi H,Nishizawa NK
    Rice genes involved in phytosiderophore biosynthesis are synchronously regulated during the early stages of iron deficiency in roots.
    Rice (N Y), 2013. 6(1): p. 16
    [PMID:24280375]
  8. Masuda H,Aung MS,Nishizawa NK
    Iron biofortification of rice using different transgenic approaches.
    Rice (N Y), 2013. 6(1): p. 40
    [PMID:24351075]
  9. Kobayashi T,Nakanishi Itai R,Nishizawa NK
    Iron deficiency responses in rice roots.
    Rice (N Y), 2014. 7(1): p. 27
    [PMID:26224556]
  10. Singh AP, et al.
    Nitric Oxide Alleviated Arsenic Toxicity by Modulation of Antioxidants and Thiol Metabolism in Rice (Oryza sativa L.).
    Front Plant Sci, 2015. 6: p. 1272
    [PMID:26793232]
  11. Yang A,Zhang WH
    A Small GTPase, OsRab6a, is Involved in the Regulation of Iron Homeostasis in Rice.
    Plant Cell Physiol., 2016. 57(6): p. 1271-80
    [PMID:27257291]
  12. Feng SJ, et al.
    Variation of DNA methylation patterns associated with gene expression in rice (Oryza sativa) exposed to cadmium.
    Plant Cell Environ., 2016. 39(12): p. 2629-2649
    [PMID:27412910]