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 Rsa1.0_05041.1_g00001.1
Organism
Raphanus sativus
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: 678aa    MW: 75248 Da    PI: 5.7726
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_05041.1_g00001.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH32.71.3e-104288555
                             HHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
                      HLH  5 hnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55
                             h+ +Er RR++i +++  L++++P +    +k   Ka +L + ++YI+sLq
  Rsa1.0_05041.1_g00001.1 42 HSLAERARREKISEKMTALQDIIPGC----NKIIGKALVLDEIINYIQSLQ 88
                             999***********************....999*****************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000831.98E-93592No hitNo description
SuperFamilySSF474591.7E-1635104IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088815.183787IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.101.2E-1638100IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000104.8E-84288IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003539.9E-104393IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:1.25.10.106.5E-18159669IPR011989Armadillo-like helical
SuperFamilySSF483712.36E-31163388IPR016024Armadillo-type fold
PfamPF083895.1E-21233378IPR013598Exportin-1/Importin-beta-like
SuperFamilySSF483712.36E-31445669IPR016024Armadillo-type fold
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006606Biological Processprotein import into nucleus
GO:0043484Biological Processregulation of RNA splicing
GO:0005634Cellular Componentnucleus
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 678 aa     Download sequence    Send to blast
MRPEGETSSG GGSKATEQKN KPEPPKDYIH VRARRGQATD RHSLAERARR EKISEKMTAL  60
QDIIPGCNKI IGKALVLDEI INYIQSLQRQ VEFLSMKLEV VNSVPSTGPT IGVFPTGDLG  120
TLPIDLHRNI YEQREANESR GSHPEWLHMQ LGGISMEHEK AVKEALNALY HHPDDTVADN  180
LLHDSSSNLE TLIFCSQTLR SKVQRDFEEL PPGAFQKLRE SLTTLLKKFH KGPPKVRTQI  240
SIAVAALAVH VPAADWGDSG IVSWLRDEMN MHPEYVPGFL ELLTVLPEET FNYKIAARPD  300
RRRQFENELT SQMEAALSIL TACLNISELK EQVLEAFASW LRLRHGIPGA VLACHPLVHA  360
ALSSLNSDPL SEASVNVISE LIHYTAAPSS GGISAQTPLI QVIVPQILSL KSHLRDSLKD  420
EEDVKAIGRL FADVGDSYVE LIATGSDESM VIVHALLEVT SHPEFDIASM TFNFWHSLQL  480
ALTKRDSYSS LGSEASIEAE RNRRLHIFRP AYESLVSLVG FRVQYPEDYQ GLSYEDLKEF  540
KQTRYDRVVS FHGFVVFIVT PFAQGVVPLS VSVADVLIDA ALILGGDTTL KILYMKLLEA  600
NAQTGNNFQE WRPAEAILFC IWAISNYVSV VEAEVMPQVM ALLQNLPQQA QLLQTACLLV  660
GAYSKWLNAA PASVSILP
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4c0o_A2e-231606719496TRANSPORTIN-3
4c0o_B2e-231606719496TRANSPORTIN-3
4c0p_A2e-2316267111496TRANSPORTIN-3
4c0p_B2e-2316267111496TRANSPORTIN-3
4c0p_C2e-2316267111496TRANSPORTIN-3
4c0p_D2e-2316267111496TRANSPORTIN-3
4c0q_A2e-231606719496TRANSPORTIN-3
4c0q_B2e-231606719496TRANSPORTIN-3
4ol0_B2e-231626719494Transportin-3
6gx9_A2e-231606719496Transportin-3
6gx9_B2e-231606719496Transportin-3
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtFunctions as nuclear import receptor for serine-arginine rich (SR) proteins. Regulates nuclear import of SR proteins that are required for proper splicing of the two resistance (R) genes SNC1 and RPS4, a crucial step for their functions in plant immunity. {ECO:0000269|PubMed:21738492}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_05041.1_g00001.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2298290.0AK229829.1 Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL21-96-I22.
GenBankAK2304150.0AK230415.1 Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL25-31-G24.
GenBankBT0024080.0BT002408.1 Arabidopsis thaliana unknown protein (At5g62590) mRNA, complete cds.
GenBankBT0105520.0BT010552.1 Arabidopsis thaliana At5g62590 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013661176.10.0transportin MOS14
RefseqXP_013707484.10.0transportin MOS14-like
SwissprotQ8GUL20.0MOS14_ARATH; Transportin MOS14
TrEMBLA0A3P5Y8J70.0A0A3P5Y8J7_BRACM; Uncharacterized protein
STRINGBra035888.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM754333
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62610.11e-90bHLH family protein
Publications ? help Back to Top
  1. Schlueter SD,Dong Q,Brendel V
    GeneSeqer@PlantGDB: Gene structure prediction in plant genomes.
    Nucleic Acids Res., 2003. 31(13): p. 3597-600
    [PMID:12824374]
  2. Merkle T
    Nucleo-cytoplasmic partitioning of proteins in plants: implications for the regulation of environmental and developmental signalling.
    Curr. Genet., 2003. 44(5): p. 231-60
    [PMID:14523572]
  3. Xu S, et al.
    Transportin-SR is required for proper splicing of resistance genes and plant immunity.
    PLoS Genet., 2011. 7(6): p. e1002159
    [PMID:21738492]
  4. Zhang CJ, et al.
    The splicing machinery promotes RNA-directed DNA methylation and transcriptional silencing in Arabidopsis.
    EMBO J., 2013. 32(8): p. 1128-40
    [PMID:23524848]