PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Solyc06g035570.1.1

Organism

Solanum lycopersicum

Taxonomic ID

4081

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: 55aa MW: 6224.26 Da PI: 11.2887

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Solyc06g035570.1.1	genome	ITAG	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	93.8	7.7e-30	2	52	1	51
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 krien + rqvtfskRrng++KKA+ELSvLCda+va+iifs++g+l+ +ss Solyc06g035570.1.1 2 KRIENATSRQVTFSKRRNGVIKKAYELSVLCDAQVALIIFSNKGRLFQFSS 52 79***********************************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50066	27.656	1	54	IPR002100	Transcription factor, MADS-box
SMART	SM00432	8.4E-31	1	53	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	7.06E-26	1	53	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	1.2E-26	3	50	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	4.2E-18	16	31	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	4.2E-18	31	52	IPR002100	Transcription factor, MADS-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:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 55 aa Download sequence Send to blast
MKRIENATSR QVTFSKRRNG VIKKAYELSV LCDAQVALII FSNKGRLFQF SSSW*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1egw_A	6e-17	3	53	9	59	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_B	6e-17	3	53	9	59	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_C	6e-17	3	53	9	59	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_D	6e-17	3	53	9	59	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1n6j_A	8e-17	1	53	7	59	Myocyte-specific enhancer factor 2B
1n6j_B	8e-17	1	53	7	59	Myocyte-specific enhancer factor 2B
1tqe_P	7e-17	3	53	10	60	Myocyte-specific enhancer factor 2B
1tqe_Q	7e-17	3	53	10	60	Myocyte-specific enhancer factor 2B
1tqe_R	7e-17	3	53	10	60	Myocyte-specific enhancer factor 2B
1tqe_S	7e-17	3	53	10	60	Myocyte-specific enhancer factor 2B
3mu6_A	6e-17	3	53	9	59	Myocyte-specific enhancer factor 2A
3mu6_B	6e-17	3	53	9	59	Myocyte-specific enhancer factor 2A
3mu6_C	6e-17	3	53	9	59	Myocyte-specific enhancer factor 2A
3mu6_D	6e-17	3	53	9	59	Myocyte-specific enhancer factor 2A
6c9l_A	7e-17	3	53	10	60	Myocyte-specific enhancer factor 2B
6c9l_B	7e-17	3	53	10	60	Myocyte-specific enhancer factor 2B
6c9l_C	7e-17	3	53	10	60	Myocyte-specific enhancer factor 2B
6c9l_D	7e-17	3	53	10	60	Myocyte-specific enhancer factor 2B
6c9l_E	7e-17	3	53	10	60	Myocyte-specific enhancer factor 2B
6c9l_F	7e-17	3	53	10	60	Myocyte-specific enhancer factor 2B
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Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed in the shoot apical meristem (SAM) during the vegetative phase and the floral transition. After floral transition, expressed in apical meristem (AM), inflorescence meristem (IM) and floral primordia. {ECO:0000269\|PubMed:21609362}.
Uniprot	TISSUE SPECIFICITY: Expressed in quiescent center (QC) cells of root tips (PubMed:18162590, PubMed:21689171). Expressed at the base of the petiole of cotyledons and leaves, in flower buds, petals, sepals and abscission zone of flowers and siliques. {ECO:0000269\|PubMed:18162590, ECO:0000269\|PubMed:21689171}.

Functional Description ? help Back to Top
Source	Description
UniProt	MADS-box transcription factor that acts with AGL71 and AGL72 in the control of flowering time. Promotes flowering at the shoot apical and axillary meristems. Seems to act through a gibberellin-dependent pathway. Interacts genetically with SOC1 and its expression is directly regulated by SOC1 (PubMed:21609362). Plays a role in controlling flower organ senescence and abscission by repressing ethylene responses and regulating the expression of BOP2 and IDA (PubMed:21689171). {ECO:0000269\|PubMed:21609362, ECO:0000269\|PubMed:21689171}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Solyc06g035570.1.1

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019069748.1	2e-30	MADS-box protein AGL42-like isoform X2
Swissprot	Q9FIS1	2e-26	AGL42_ARATH; MADS-box protein AGL42
TrEMBL	A0A3Q7GTV0	5e-29	A0A3Q7GTV0_SOLLC; Uncharacterized protein
STRING	Solyc06g035570.1.1	9e-32	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA40	24	625
Representative plant	OGRP16	17	761

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G62165.4	8e-29	AGAMOUS-like 42

Link Out ? help Back to Top
Phytozome	Solyc06g035570.1.1

Publications ? help Back to Top
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]