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

676762448

Organism

Sisymbrium irio

Taxonomic ID

3730

Taxonomic Lineage

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

Family

M-type_MADS

Protein Properties

Length: 244aa MW: 28410.2 Da PI: 9.8968

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
676762448	genome	VEGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	70.7	1.3e-22	16	62	3	49
--SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS SRF-TF 3 ienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49 en+sn qvtfskRr+g++KKA+EL++LC+++ vi+fs+ k++++ 676762448 16 MENDSNLQVTFSKRRQGLFKKASELCTLCGVQMGVIVFSPGRKVFTF 62 69********************************************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50066	23.647	6	66	IPR002100	Transcription factor, MADS-box
SMART	SM00432	6.4E-31	6	65	IPR002100	Transcription factor, MADS-box
CDD	cd00265	3.29E-32	7	80	No hit	No description
SuperFamily	SSF55455	6.93E-26	7	85	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.2E-17	8	28	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	4.0E-24	15	62	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.2E-17	28	43	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.2E-17	43	64	IPR002100	Transcription factor, MADS-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009960	Biological Process	endosperm development
GO:0003677	Molecular Function	DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 244 aa Download sequence Send to blast
MSRNRKGRQK VEIVKMENDS NLQVTFSKRR QGLFKKASEL CTLCGVQMGV IVFSPGRKVF 60 TFGNPDVRYV INRFKNQHYN PLLLTEAGQN TAVQGLNNLL TQEVSKIEME KRKRKELEKI 120 RNYREETAKW WEKPPNQLDS KQNTCLISVL EDLKNELGSQ RSQQLQTVGF QNYYGGSYNN 180 IVGGGNVDLL NQTRMLDMNA FNYNLNMINP YHGPLFGYNN NNNVFEVSGP RYNMNWLEDN 240 HRHY

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	676762448

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_009103700.1	1e-115	PREDICTED: agamous-like MADS-box protein AGL62
Swissprot	Q9FKK2	1e-65	AGL62_ARATH; Agamous-like MADS-box protein AGL62
TrEMBL	A0A397YQ10	1e-114	A0A397YQ10_BRACM; Uncharacterized protein
STRING	Bra011938.1-P	1e-114	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM16574	6	11

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G60440.1	5e-59	AGAMOUS-like 62

Publications ? help Back to Top
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]