PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_009114323.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family bHLH
Protein Properties Length: 509aa    MW: 56441.3 Da    PI: 5.9638
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009114323.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH30.85.3e-10340385454
                     HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHH CS
             HLH   4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksL 54 
                     +h ++Er RR+++N  f  Lr  +P+       K++Ka+ L  A+ YI++L
  XP_009114323.1 340 NHVQAERLRREKLNMQFYALRATVPNV-----SKMDKASLLGDAICYINEL 385
                     6999**********************6.....5***************998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF142159.6E-4939219IPR025610Transcription factor MYC/MYB N-terminal
PROSITE profilePS5088815.434336385IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474592.62E-15339406IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000833.76E-10339386No hitNo description
Gene3DG3DSA:4.10.280.102.1E-14340406IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.6E-7340385IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003536.3E-12342391IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0042538Biological Processhyperosmotic salinity response
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005509Molecular Functioncalcium ion binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 509 aa     Download sequence    Send to blast
MDHLNTNFTA SMIEALMNSP SSDSWPPLSP ANPSPDSALQ KRLQAVLNGT HEAWTYVIFW  60
TPSYYDFSGD SVLKWGDGIY KGEEADKTRR RRRTVAENEH RSTILRELSS MISDEALLVM  120
GDEDDLEVSD PSWFYLTSMT VSFGSGSGLP GKAFATYKPV WVTGSDHIMG SGCDRAKKGG  180
DLGLQTIVCI PLDNGVLELG STAEIQQTPD LFNKIRVVFS FEGSRDFSGD PNSNSFPRFS  240
TQLDNGGGSS TVTFSPYPGP FYPQILNTLS QEINFNTLEG DHSGEIHSTN RNAYPGQIQN  300
DDGHIDDFVH SDIEATVAPD NKRKKKRGRK LANGRKEPLN HVQAERLRRE KLNMQFYALR  360
ATVPNVSKMD KASLLGDAIC YINELKSRAE NAESKKNAIQ MELNKLREEI AGRNAVSSVC  420
RGEGNASENE TANIDVKILG CDAMVRLESS KRNHPAARLM NAFMDLDVEL NHASISVIHD  480
LMIQQATVKM GSRMYTQDQL RAMLVSKIN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4rqw_A5e-47362216194Transcription factor MYC3
4rqw_B5e-47362216194Transcription factor MYC3
4rs9_A5e-47362216194Transcription factor MYC3
4yz6_A5e-47362216194Transcription factor MYC3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
18893RRRRRT
2321329KRKKKRGRK
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00547DAPTransfer from AT5G46830Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009114323.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By UV treatment. {ECO:0000269|PubMed:12679534}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009114323.10.0PREDICTED: transcription factor bHLH28-like
SwissprotQ9LUK71e-174BH028_ARATH; Transcription factor bHLH28
TrEMBLM4DLY90.0M4DLY9_BRARP; Uncharacterized protein
STRINGBra017520.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM139531624
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G46830.11e-170NACL-inducible gene 1
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. Chen X,Huang H,Qi T,Liu B,Song S
    New perspective of the bHLH-MYB complex in jasmonate-regulated plant fertility in arabidopsis.
    Plant Signal Behav, 2016. 11(2): p. e1135280
    [PMID:26829586]
  3. Ezer D, et al.
    The G-Box Transcriptional Regulatory Code in Arabidopsis.
    Plant Physiol., 2017. 175(2): p. 628-640
    [PMID:28864470]
  4. Song S, et al.
    MYC5 is Involved in Jasmonate-Regulated Plant Growth, Leaf Senescence and Defense Responses.
    Plant Cell Physiol., 2017. 58(10): p. 1752-1763
    [PMID:29017003]
  5. Min JH, et al.
    Arabidopsis Basic Helix-Loop-Helix 34 (bHLH34) Is Involved in Glucose Signaling through Binding to a GAGA Cis-Element.
    Front Plant Sci, 2017. 8: p. 2100
    [PMID:29321786]