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 676764430
Organism
Sisymbrium irio
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Sisymbrieae; Sisymbrium
Family MYB_related
Protein Properties Length: 575aa    MW: 64131.4 Da    PI: 8.8864
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
676764430genomeVEGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding231.9e-07463512147
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT...TTS-HHHHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmg...kgRtlkqcksrwqky 47 
                      r +++  E e lv+av++lG+g+W+ + ++      +Rt  ++k++w ++
        676764430 463 RRPFSVSEVEALVQAVEKLGTGRWRDVKHRAFedaDHRTYVDLKDKWKTL 512
                      678999************************999**9***********986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF542365.78E-9295367IPR029071Ubiquitin-related domain
PROSITE profilePS5005310.332300369IPR000626Ubiquitin domain
Gene3DG3DSA:3.10.20.901.7E-5303369No hitNo description
PROSITE profilePS5129416.001458517IPR017930Myb domain
SMARTSM007176.1E-8462515IPR001005SANT/Myb domain
PfamPF002491.4E-5463512IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.3E-10463513IPR009057Homeodomain-like
SuperFamilySSF466892.11E-15464545IPR009057Homeodomain-like
CDDcd116604.70E-17464514No 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: 575 aa     Download sequence    Send to blast
MVSHKCVEGF GYKGYLLPPN ARAPRSARKR RSFEKKISED KQQCAIDLLA TVAENLLSEI  60
VSVDKAVDGI DDHCLVTQKY SVKEEFPVED EPLKPLTLPE VNPYQGPMSP CGLSSVINGK  120
VELEAEGFSN SGGIDSCQVG QDLKQGIDGD AVALDATPNC VVSLGSSSNT KVPSVGTGAS  180
RGALDDVNLF SRDDDENFSG YICPRVTKNS PRSVPRIGDR RIRKILASRH WKGSSRHSDA  240
KSWRNYHLHH QRNYPIKKRR HFFDSMTDDY RLRTKIQRGS RIVSSMKGPG ASFVSSDSHV  300
RLRIKSFRVP ELFVEVPETA TVGSLKRMVM EAVSTLLSDG HRVGLMVQGK KVRDDNKTLH  360
QTGISQDNTH LDSLDFSLEP SSDAPHLLSS NPSGHVCDEL PMCHASNMDT VFKSEHDLEL  420
FSSDSFGNKT ATDDSKGLVP SGLTELAPFR KSKRSETAHR RMRRPFSVSE VEALVQAVEK  480
LGTGRWRDVK HRAFEDADHR TYVDLKDKWK TLVHTAKISP QQRRGEPVPQ ELLNRVLNAH  540
GYWSQQHIHM LQSTSNNKQL QETLPLPKAE SVLLL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
2juh_A1e-504505474101Telomere binding protein TBP1
Search in ModeBase
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
PlantRegMap676764430
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3167791e-109AK316779.1 Arabidopsis thaliana AT5G59430 mRNA, complete cds, clone: RAFL09-79-C10.
GenBankAK3188301e-109AK318830.1 Arabidopsis thaliana AT5G59430 mRNA, complete cds, clone: RAFL16-03-D20.
GenBankAY1283821e-109AY128382.1 Arabidopsis thaliana telomere repeat-binding protein (At5g59430) mRNA, complete cds.
GenBankAY5195441e-109AY519544.1 Arabidopsis thaliana MYB transcription factor (At5g59430) mRNA, complete cds.
GenBankBT0001171e-109BT000117.1 Arabidopsis thaliana telomere repeat-binding protein (At5g59430) mRNA, complete cds.
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
TrEMBLA0A3N6R5940.0A0A3N6R594_BRACR; Uncharacterized protein (Fragment)
STRINGXP_006400962.10.0(Eutrema salsugineum)
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-105TRF-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]