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_01945.1_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 MYB_related
Protein Properties Length: 560aa    MW: 62471.5 Da    PI: 8.8511
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_01945.1_g00001.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding21.65.1e-07459508147
                              TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT...TTS-HHHHHHHHHHH CS
          Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmg...kgRtlkqcksrwqky 47 
                              r +++  E e lv+av++lG+g+W+ + +       +Rt  ++k++w ++
  Rsa1.0_01945.1_g00001.1 459 RRPFSVTEVEALVQAVEKLGTGRWRDVKHSAFedaDHRTYVDLKDKWKTL 508
                              678999*********************999999999***********986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF542361.49E-8282354IPR029071Ubiquitin-related domain
Gene3DG3DSA:3.10.20.905.0E-5284355No hitNo description
PROSITE profilePS5005310.266287356IPR000626Ubiquitin domain
PROSITE profilePS5129415.914454513IPR017930Myb domain
SMARTSM007176.2E-7458511IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.605.7E-10459509IPR009057Homeodomain-like
SuperFamilySSF466893.26E-15460541IPR009057Homeodomain-like
CDDcd116601.59E-16461510No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009651Biological Processresponse to salt stress
GO:0009733Biological Processresponse to auxin
GO:0009739Biological Processresponse to gibberellin
GO:0009751Biological Processresponse to salicylic acid
GO:0009753Biological Processresponse to jasmonic acid
GO:0009873Biological Processethylene-activated signaling pathway
GO:0046686Biological Processresponse to cadmium ion
GO:0005737Cellular Componentcytoplasm
GO:0005886Cellular Componentplasma membrane
GO:0031965Cellular Componentnuclear membrane
GO:0003691Molecular Functiondouble-stranded telomeric DNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 560 aa     Download sequence    Send to blast
MVSHKCVEEF SLQFPANARA PRSARKRRSF KEEEISENDR TCAIDLLATV AENLLSESGS  60
CHMSIDKPAN GVEDHCLVTQ IHSVKEEFPV EEKPATLPDV GPYQGSMSPC GFSSVINGKV  120
EIEAEGFSNS GAVVLDARPN GVGSLGGSSS SRTKVPSMGA AVTSRGALDD VNLFSRDDDE  180
NFSGYICPRV TKKPPRSVPR VGDRRIRKIL ASRHWKGGSR HSEAKSWRSY YLHHQRSYPI  240
KKRKYFEHIS DSVSDDYRLR SKMQRGSRTV TTMKGPGASF VSSDSHVRLR IKSFRVPELF  300
VEIPETATVG SLKRMVMEAV STLLSDGHRV GLMVQGKKVR DDNKTLHQTG ISQDNTHLDS  360
LDFSLEPSSE APHLLSSNPL GHVCEELPIC HASDMDTVFK SEHDLALYPS HSFDKETATD  420
VSKALVPATA ALTELSPQLP RHKSKQQQQQ QQTAQRRMRR PFSVTEVEAL VQAVEKLGTG  480
RWRDVKHSAF EDADHRTYVD LKDKWKTLVH TAKISPQQRR GEPVPQELLN RVLNAHGYWS  540
QQHMETTTLA LPKPESVLLL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
2aje_A2e-51455540994telomere repeat-binding protein
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1234243QRSYPIKKRK
Functional Description ? help Back to Top
Source Description
UniProtBinds specifically to the plant telomeric double-stranded DNA sequences 5'-GGTTTAG-3'. At least 4 repeats of telomeric sequences are required for binding. Induces DNA bending.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_01945.1_g00001.1
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_013714640.10.0telomere repeat-binding protein 1-like isoform X1
SwissprotQ8L7L80.0TRP1_ARATH; Telomere repeat-binding protein 1
TrEMBLA0A3P6CI850.0A0A3P6CI85_BRACM; Uncharacterized protein
STRINGBra002566.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM381255
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G07540.11e-95TRF-like 2
Publications ? help Back to Top
  1. Chen CM,Wang CT,Ho CH
    A plant gene encoding a Myb-like protein that binds telomeric GGTTTAG repeats in vitro.
    J. Biol. Chem., 2001. 276(19): p. 16511-9
    [PMID:11278537]
  2. Sue SC, et al.
    Solution structure of the Arabidopsis thaliana telomeric repeat-binding protein DNA binding domain: a new fold with an additional C-terminal helix.
    J. Mol. Biol., 2006. 356(1): p. 72-85
    [PMID:16337232]
  3. Lin Z,Ho CW,Grierson D
    AtTRP1 encodes a novel TPR protein that interacts with the ethylene receptor ERS1 and modulates development in Arabidopsis.
    J. Exp. Bot., 2009. 60(13): p. 3697-714
    [PMID:19567478]
  4. Fulcher N,Riha K
    Using Centromere Mediated Genome Elimination to Elucidate the Functional Redundancy of Candidate Telomere Binding Proteins in Arabidopsis thaliana.
    Front Genet, 2015. 6: p. 349
    [PMID:26779251]