PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Rsa1.0_02882.1_g00001.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family bHLH
Protein Properties Length: 251aa    MW: 28436.1 Da    PI: 6.0989
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_02882.1_g00001.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH51.32.1e-1670122155
                              CHHHHHHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHHH CS
                      HLH   1 rrrahnerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksLq 55 
                              ++ +hn+ Er RR++iNs f+ Lr++lP  +   +skKls  +++ +  +YI +Lq
  Rsa1.0_02882.1_g00001.1  70 KKLNHNASERDRRKKINSLFSSLRSCLPAsD---QSKKLSIPQTVSRSLKYIPELQ 122
                              6789*************************66...*******************998 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088814.70469121IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.0E-1370122IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474595.23E-1670139IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000831.14E-1370122No hitNo description
Gene3DG3DSA:4.10.280.107.1E-1470136IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003531.3E-1175127IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010106Biological Processcellular response to iron ion starvation
GO:0055072Biological Processiron ion homeostasis
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 251 aa     Download sequence    Send to blast
MCALVPPVFP NFGWPSTGEY ESYYLAGENL DDFTFLDFPA QETYGVEHHQ EIQELLGVSV  60
ASEGNGVVTK KLNHNASERD RRKKINSLFS SLRSCLPASD QSKKLSIPQT VSRSLKYIPE  120
LQGEVKKLIK KKEELLVRVS SQRDIEHYVE PQPKAVTRYV ATISATRLGD NEVMVQISSS  180
KIHNFSISNV LSGLEEDGFV LVDVSSSRSH GERLFYTLHL QMGNIDNHNL TCEELNQRML  240
YLYEECGNSF R
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_02882.1_g00001.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by OBP3, auxin and salicylic acid (SA). Repressed by jasmonic acid (JA), UV LIGHT, and heat treatments. Up regulated by iron deficiency in roots and leaves, as well as by nickel, high zinc or high copper treatments. Repressed by high iron, low copper and low zinc treatments. {ECO:0000269|PubMed:12679534, ECO:0000269|PubMed:12887587, ECO:0000269|PubMed:17516080}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018458568.10.0PREDICTED: transcription factor ORG3-like
SwissprotQ9M1K11e-135ORG2_ARATH; Transcription factor ORG2
TrEMBLA0A397ZPU91e-171A0A397ZPU9_BRACM; Uncharacterized protein
STRINGBra014657.1-P1e-170(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM48228153
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G56980.11e-126bHLH family protein
Publications ? help Back to Top
  1. Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH
    Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature.
    Differentiation, 2010. 80(1): p. 1-8
    [PMID:20219281]
  2. Matsuoka K, et al.
    Gibberellin-induced expression of Fe uptake-related genes in Arabidopsis.
    Plant Cell Physiol., 2014. 55(1): p. 87-98
    [PMID:24192296]
  3. Li X,Zhang H,Ai Q,Liang G,Yu D
    Two bHLH Transcription Factors, bHLH34 and bHLH104, Regulate Iron Homeostasis in Arabidopsis thaliana.
    Plant Physiol., 2016. 170(4): p. 2478-93
    [PMID:26921305]
  4. Shen C, et al.
    Involvement of endogenous salicylic acid in iron-deficiency responses in Arabidopsis.
    J. Exp. Bot., 2016. 67(14): p. 4179-93
    [PMID:27208542]
  5. Liang G,Zhang H,Li X,Ai Q,Yu D
    bHLH transcription factor bHLH115 regulates iron homeostasis in Arabidopsis thaliana.
    J. Exp. Bot., 2017. 68(7): p. 1743-1755
    [PMID:28369511]
  6. Ezer D, et al.
    The G-Box Transcriptional Regulatory Code in Arabidopsis.
    Plant Physiol., 2017. 175(2): p. 628-640
    [PMID:28864470]
  7. Kailasam S,Wang Y,Lo JC,Chang HF,Yeh KC
    S-Nitrosoglutathione works downstream of nitric oxide to mediate iron-deficiency signaling in Arabidopsis.
    Plant J., 2018. 94(1): p. 157-168
    [PMID:29396986]
  8. Kurt F,Filiz E
    Genome-wide and comparative analysis of bHLH38, bHLH39, bHLH100 and bHLH101 genes in Arabidopsis, tomato, rice, soybean and maize: insights into iron (Fe) homeostasis.
    Biometals, 2018. 31(4): p. 489-504
    [PMID:29546482]