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Plant Transcription
Factor Database
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Transcription Factor Information
Basic
Information? help
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TF ID |
Solyc04g005320.2.1 |
Common Name | LOC101253992 |
Organism |
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Taxonomic ID |
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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
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Family |
MIKC_MADS |
Protein Properties |
Length: 239aa MW: 27522.1 Da PI: 8.5995 |
Description |
MIKC_MADS family protein |
Gene Model |
Gene Model ID |
Type |
Source |
Coding Sequence |
Solyc04g005320.2.1 | genome | ITAG | View CDS |
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Signature Domain? help Back to Top |
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No. |
Domain |
Score |
E-value |
Start |
End |
HMM Start |
HMM End |
1 | SRF-TF | 96.5 | 1.1e-30 | 9 | 59 | 1 | 51 |
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
krienk+nrqvtf+kRrng+lKKA+ELS+LC+aeva+iifs++gklye++s
Solyc04g005320.2.1 9 KRIENKINRQVTFAKRRNGLLKKAYELSILCEAEVALIIFSNRGKLYEFCS 59
79***********************************************96 PP
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2 | K-box | 92.7 | 6.2e-31 | 82 | 173 | 9 | 100 |
K-box 9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99
++++++++ +qe+ kLk+++e Lq++qRh+lGedL++L+ k+L+qLe+qL++sl+ iRs++++ +l+q+++lq+ke++l e+n++L++kle
Solyc04g005320.2.1 82 QSSKDSQNNYQEYMKLKARVEVLQQSQRHILGEDLGQLNTKDLEQLERQLDSSLRLIRSRRTQNMLDQLSDLQQKEQSLLEINRSLKTKLE 172
678889***********************************************************************************98 PP
K-box 100 e 100
e
Solyc04g005320.2.1 173 E 173
7 PP
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Protein Features
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Database |
Entry ID |
E-value |
Start |
End |
InterPro ID |
Description |
PROSITE profile | PS50066 | 33.081 | 1 | 61 | IPR002100 | Transcription factor, MADS-box |
SMART | SM00432 | 7.9E-41 | 1 | 60 | IPR002100 | Transcription factor, MADS-box |
CDD | cd00265 | 6.61E-44 | 2 | 78 | No hit | No description |
SuperFamily | SSF55455 | 1.23E-33 | 2 | 84 | IPR002100 | Transcription factor, MADS-box |
PRINTS | PR00404 | 3.1E-32 | 3 | 23 | IPR002100 | Transcription factor, MADS-box |
PROSITE pattern | PS00350 | 0 | 3 | 57 | IPR002100 | Transcription factor, MADS-box |
Pfam | PF00319 | 1.7E-25 | 10 | 57 | IPR002100 | Transcription factor, MADS-box |
PRINTS | PR00404 | 3.1E-32 | 23 | 38 | IPR002100 | Transcription factor, MADS-box |
PRINTS | PR00404 | 3.1E-32 | 38 | 59 | IPR002100 | Transcription factor, MADS-box |
Pfam | PF01486 | 8.4E-26 | 83 | 171 | IPR002487 | Transcription factor, K-box |
PROSITE profile | PS51297 | 15.386 | 87 | 177 | IPR002487 | Transcription factor, K-box |
Gene Ontology ? help Back to Top |
GO Term |
GO Category |
GO Description |
GO:0006355 | Biological Process | regulation of transcription, DNA-templated |
GO:0005634 | Cellular Component | nucleus |
GO:0003677 | Molecular Function | DNA binding |
GO:0003700 | Molecular Function | transcription factor activity, sequence-specific DNA binding |
GO:0046983 | Molecular Function | protein dimerization activity |
Sequence ? help Back to Top |
Protein Sequence Length: 239 aa
Download sequence Send
to blast |
MGRGKVELKR IENKINRQVT FAKRRNGLLK KAYELSILCE AEVALIIFSN RGKLYEFCST 60 SSMSDTLERY HRCSYGDLET GQSSKDSQNN YQEYMKLKAR VEVLQQSQRH ILGEDLGQLN 120 TKDLEQLERQ LDSSLRLIRS RRTQNMLDQL SDLQQKEQSL LEINRSLKTK LEENSVAHWH 180 ITGEQNVQFR QQPAQSEGFF QPLQCNTNIV PNRYNVAPLD SIEPSTQNAT GILPGWML*
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3D Structure ? help Back to Top |
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PDB ID |
Evalue |
Query Start |
Query End |
Hit Start |
Hit End |
Description |
4ox0_A | 2e-25 | 92 | 171 | 22 | 101 | Developmental protein SEPALLATA 3 |
4ox0_B | 2e-25 | 92 | 171 | 22 | 101 | Developmental protein SEPALLATA 3 |
4ox0_C | 2e-25 | 92 | 171 | 22 | 101 | Developmental protein SEPALLATA 3 |
4ox0_D | 2e-25 | 92 | 171 | 22 | 101 | Developmental protein SEPALLATA 3 |
Search in ModeBase |
Functional Description ? help
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Source |
Description |
UniProt | Probable MADS-box transcription factor that functions with J2 and EJ2 in meristem maturation. {ECO:0000269|PubMed:28528644}. |
Function -- GeneRIF ? help
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- SlCMB1 is a new component to the current model of regulatory network that regulates ethylene biosynthesis and carotenoid accumulation during fruit ripening. [SlCMB1]
[PMID: 29467500] - SlCMB1 is an important regulator involved in the development of inflorescence architecture and sepal size. [SICMB1]
[PMID: 29807608]
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Publications
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- Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD
Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments. Theor. Appl. Genet., 2005. 112(1): p. 72-84 [PMID:16208505] - Tomato Genome Consortium
The tomato genome sequence provides insights into fleshy fruit evolution. Nature, 2012. 485(7400): p. 635-41 [PMID:22660326] - Soyk S, et al.
Bypassing Negative Epistasis on Yield in Tomato Imposed by a Domestication Gene. Cell, 2017. 169(6): p. 1142-1155.e12 [PMID:28528644] - Zhang J, et al.
A tomato MADS-box protein, SlCMB1, regulates ethylene biosynthesis and carotenoid accumulation during fruit ripening. Sci Rep, 2018. 8(1): p. 3413 [PMID:29467500] - Zhang J, et al.
Suppression of a tomato SEPALLATA MADS-box gene, SlCMB1, generates altered inflorescence architecture and enlarged sepals. Plant Sci., 2018. 272: p. 75-87 [PMID:29807608]
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