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 Sopen01g046240.1
Organism
Solanum pennellii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
Family M-type_MADS
Protein Properties Length: 482aa    MW: 54644.6 Da    PI: 7.8916
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sopen01g046240.1genomespennView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF42.77.1e-14382427550
                       SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
            SRF-TF   5 nksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50 
                        k+n++ ++  R++ i  K  EL +LCd++v+ +i +++g+l++++
  Sopen01g046240.1 382 KKTNKSKSYQVRKECIKRKSMELATLCDIKVCTVITGPNGELQTWP 427
                       699******************************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
ProDomPD1409863.0E-5922207IPR006918COBRA, plant
Gene3DG3DSA:2.60.40.2903.8E-43191IPR012291Cellulose-binding family II/chitobiase, carbohydrate-binding domain
PfamPF048331.8E-6348208IPR006918COBRA, plant
SuperFamilySSF554551.44E-14378453IPR002100Transcription factor, MADS-box
PROSITE profilePS5006610.063381426IPR002100Transcription factor, MADS-box
PfamPF003198.8E-10382426IPR002100Transcription factor, MADS-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010215Biological Processcellulose microfibril organization
GO:0016049Biological Processcell growth
GO:0031225Cellular Componentanchored component of membrane
GO:0003677Molecular FunctionDNA binding
GO:0004553Molecular Functionhydrolase activity, hydrolyzing O-glycosyl compounds
GO:0030247Molecular Functionpolysaccharide binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 482 aa     Download sequence    Send to blast
MANFGLILVL DLLFLIYPVV YGYDPMDPMG NITIRWDVTT STENDHHIRV SIFNYQLFRH  60
IEQPGWKLSW DWHGKEVIWQ MWGAETTEQG DCSAIKGDTL PHCCLKEPVI LDLLPGAPYN  120
KQVANCCKGG VLTSLTQDPE KYVSSFEMSI ASASNDGSGP RMPENFTLGI PGYTCGVAVK  180
VPPTKFHEDQ GRRQTQAVAT WDVICSYSQF RASSSPACCV SLSAFYSESI VPCSVCSCGC  240
QGQRGASQCV KRGEVPPVLQ LGHNKLPTPI LECTRHMCPI QVHWHVKQSY REYWRVKMTI  300
RNLNLVRNYS QWNLVVLHPN LRSITQVFSF DYKPLDQYGD INDTGMFYGI KYYNDMLLQA  360
GRSGVVQNED QSKKGEDDQR KKKTNKSKSY QVRKECIKRK SMELATLCDI KVCTVITGPN  420
GELQTWPDNL NACKEVLDIY SQNLKPEKKH KQEDKDLPTL VESKLAAVNR RICFLENKNV  480
AD
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9754400.0HG975440.1 Solanum pennellii chromosome ch01, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015089119.10.0COBRA-like protein 6
SwissprotO045001e-146COBL6_ARATH; COBRA-like protein 6
TrEMBLA0A1U8E6W30.0A0A1U8E6W3_CAPAN; COBRA-like protein
TrEMBLA0A2G2Y1V60.0A0A2G2Y1V6_CAPAN; COBRA-like protein
STRINGSolyc01g103860.2.10.0(Solanum lycopersicum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G39810.14e-10AGAMOUS-like 98
Publications ? help Back to Top
  1. Roudier F,Schindelman G,DeSalle R,Benfey PN
    The COBRA family of putative GPI-anchored proteins in Arabidopsis. A new fellowship in expansion.
    Plant Physiol., 2002. 130(2): p. 538-48
    [PMID:12376623]
  2. Lalanne E, et al.
    SETH1 and SETH2, two components of the glycosylphosphatidylinositol anchor biosynthetic pathway, are required for pollen germination and tube growth in Arabidopsis.
    Plant Cell, 2004. 16(1): p. 229-40
    [PMID:14671020]