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

AT4G36590.1

Organism

Arabidopsis thaliana

Taxonomic ID

3702

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis

Family

M-type_MADS

Protein Properties

Length: 248aa MW: 28470.2 Da PI: 9.6367

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT4G36590.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	67.6	1.2e-21	14	62	1	49
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49 k+ en+sn qvtfskRr g++KKA+EL++L +ae+++i+fs+ gk++ + AT4G36590.1 14 KKMENESNLQVTFSKRRFGLFKKASELCTLSGAEILLIVFSPGGKVFSF 62 5789******************************************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	3.2E-34	6	65	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	24.656	6	66	IPR002100	Transcription factor, MADS-box
CDD	cd00265	5.73E-39	7	83	No hit	No description
SuperFamily	SSF55455	1.83E-27	7	94	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	5.6E-19	8	28	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	9.4E-23	15	62	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	5.6E-19	28	43	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	5.6E-19	43	64	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:0005829	Cellular Component	cytosol
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0009009	anatomy	plant embryo
PO:0009046	anatomy	flower
PO:0009089	anatomy	endosperm
PO:0025195	anatomy	pollen tube cell
PO:0001185	developmental stage	plant embryo globular stage
PO:0004507	developmental stage	plant embryo bilateral stage
PO:0007611	developmental stage	petal differentiation and expansion stage

Sequence ? help Back to Top
Protein Sequence Length: 248 aa Download sequence Send to blast
MVRSTKGRQK IEMKKMENES NLQVTFSKRR FGLFKKASEL CTLSGAEILL IVFSPGGKVF 60 SFGHPSVQEL IHRFSNPNHN SAIVHHQNNN LQLVETRPDR NIQYLNNILT EVLANQEKEK 120 QKRMVLDLLK ESREQVGNWY EKDVKDLDMN ETNQLISALQ DVKKKLVREM SQYSQVNVSQ 180 NYFGQSSGVI GGGNVGIDLF DQRRNAFNYN PNMVFPNHTP PMFGYNNDGV LVPISNMNYM 240 SSYNFNQS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1c7u_A	5e-15	7	95	1	85	MYOCYTE-SPECIFIC ENHANCER FACTOR 2A, C4 FORM
1c7u_B	5e-15	7	95	1	85	MYOCYTE-SPECIFIC ENHANCER FACTOR 2A, C4 FORM
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Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	18419866	0.0
Genevisible	246224_at	0.0
Expression Atlas	AT4G36590	-
AtGenExpress	AT4G36590	-
ATTED-II	AT4G36590	-

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed during the syncytial endosperm development. {ECO:0000269\|PubMed:18334668}.
Uniprot	TISSUE SPECIFICITY: Expressed in the endosperm but not in the embryo. Detected in young siliques, roots, leaves, stems, young flowers and anthers. {ECO:0000269\|PubMed:18334668}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. Required for suppression of cellularization and promotion of nuclear proliferation during early endosperm development. The FERTILIZATION-INDEPENDENT SEED (FIS) polycomb complex is required for suppression of ALG62 expression at the end of the syncytial phase of endosperm development. {ECO:0000269\|PubMed:18334668}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT4G36590.1

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

Interaction ? help Back to Top
Source	Intact With
BioGRID	AT5G27960, AT1G31630, AT1G65300, AT1G65330

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT4G36590

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AY141234	0.0	AY141234.1 Arabidopsis thaliana MADS-box protein AGL40 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_195377.1	0.0	MADS-box transcription factor family protein
Swissprot	Q9FKK2	5e-73	AGL62_ARATH; Agamous-like MADS-box protein AGL62
TrEMBL	A0A178UZM5	0.0	A0A178UZM5_ARATH; Uncharacterized protein
TrEMBL	A0MFC4	0.0	A0MFC4_ARATH; Uncharacterized protein (Fragment)
TrEMBL	O23222	0.0	O23222_ARATH; MADS-box protein
STRING	AT4G36590.1	0.0	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM14294	10	22
Representative plant	OGRP16	17	761

Link Out ? help Back to Top
Phytozome	AT4G36590.1
Entrez Gene	829811
iHOP	AT4G36590
wikigenes	AT4G36590

Publications ? help Back to Top
Riechmann JL, et al. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science, 2000. 290(5499): p. 2105-10 [PMID:11118137] De Bodt S, et al. Genomewide structural annotation and evolutionary analysis of the type I MADS-box genes in plants. J. Mol. Evol., 2003. 56(5): p. 573-86 [PMID:12698294] Parenicová L, et al. Molecular and phylogenetic analyses of the complete MADS-box transcription factor family in Arabidopsis: new openings to the MADS world. Plant Cell, 2003. 15(7): p. 1538-51 [PMID:12837945] Kofuji R, et al. Evolution and divergence of the MADS-box gene family based on genome-wide expression analyses. Mol. Biol. Evol., 2003. 20(12): p. 1963-77 [PMID:12949148] Lall S,Nettleton D,DeCook R,Che P,Howell SH Quantitative trait loci associated with adventitious shoot formation in tissue culture and the program of shoot development in Arabidopsis. Genetics, 2004. 167(4): p. 1883-92 [PMID:15342526] de Folter S, et al. Comprehensive interaction map of the Arabidopsis MADS Box transcription factors. Plant Cell, 2005. 17(5): p. 1424-33 [PMID:15805477] Pina C,Pinto F,Feij Gene family analysis of the Arabidopsis pollen transcriptome reveals biological implications for cell growth, division control, and gene expression regulation. Plant Physiol., 2005. 138(2): p. 744-56 [PMID:15908605] Wang Y, et al. Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis. Plant Physiol., 2008. 148(3): p. 1201-11 [PMID:18775970] Day RC,Herridge RP,Ambrose BA,Macknight RC Transcriptome analysis of proliferating Arabidopsis endosperm reveals biological implications for the control of syncytial division, cytokinin signaling, and gene expression regulation. Plant Physiol., 2008. 148(4): p. 1964-84 [PMID:18923020] Bemer M,Heijmans K,Airoldi C,Davies B,Angenent GC An atlas of type I MADS box gene expression during female gametophyte and seed development in Arabidopsis. Plant Physiol., 2010. 154(1): p. 287-300 [PMID:20631316] Ito J, et al. Analysis of the Arabidopsis cytosolic proteome highlights subcellular partitioning of central plant metabolism. J. Proteome Res., 2011. 10(4): p. 1571-82 [PMID:21166475] Xu W, et al. Endosperm and Nucellus Develop Antagonistically in Arabidopsis Seeds. Plant Cell, 2016. 28(6): p. 1343-60 [PMID:27233529] Figueiredo DD,Batista RA,Roszak PJ,Köhler C Auxin production couples endosperm development to fertilization. Nat Plants, 2015. 1: p. 15184 [PMID:27251719] Figueiredo DD,Batista RA,Roszak PJ,Hennig L,Köhler C Auxin production in the endosperm drives seed coat development in Arabidopsis. Elife, 2017. [PMID:27848912] Fiume E,Coen O,Xu W,Lepiniec L,Magnani E Growth of the Arabidopsis sub-epidermal integument cell layers might require an endosperm signal. Plant Signal Behav, 2017. 12(8): p. e1339000 [PMID:28613109] Zhang S, et al. FERTILIZATION-INDEPENDENT SEED-Polycomb Repressive Complex 2 Plays a Dual Role in Regulating Type I MADS-Box Genes in Early Endosperm Development. Plant Physiol., 2018. 177(1): p. 285-299 [PMID:29523711]