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

Rsa1.0_01437.1_g00002.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

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

Family

M-type_MADS

Protein Properties

Length: 191aa MW: 21692.8 Da PI: 7.6258

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_01437.1_g00002.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	74.3	9.6e-24	5	50	4	49
-SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS SRF-TF 4 enksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49 e + n qvtfskR+ g++KKA+EL++LCda++avi+fs++gk+y + Rsa1.0_01437.1_g00002.1 5 EKENNLQVTFSKRKVGLFKKASELCTLCDARIAVIVFSPSGKVYSF 50 667899**************************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00265	5.90E-31	1	69	No hit	No description
PROSITE profile	PS50066	21.46	1	54	IPR002100	Transcription factor, MADS-box
SMART	SM00432	4.4E-25	1	53	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	1.06E-23	2	70	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	4.5E-25	3	50	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.2E-11	16	31	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.2E-11	31	52	IPR002100	Transcription factor, MADS-box

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

Sequence ? help Back to Top
Protein Sequence Length: 191 aa Download sequence Send to blast
MVKMEKENNL QVTFSKRKVG LFKKASELCT LCDARIAVIV FSPSGKVYSF GHTKVETIIE 60 RFENNDHPDN NPQLNMQLGE IHQILQFEVT NQLESEQQTS EDIKKLRKKF KIPEIWLKES 120 IGILDLGQAK EFKGKLENLK KQVTQEAFQL FLATPFPHPG FYAGSSSNAP FGNYSNVEGF 180 VPGFNHDMAL P

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	Rsa1.0_01437.1_g00002.1

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_013621272.1	1e-101	PREDICTED: agamous-like MADS-box protein AGL62
Swissprot	Q9FKK2	2e-46	AGL62_ARATH; Agamous-like MADS-box protein AGL62
TrEMBL	A0A0D3AKR1	1e-100	A0A0D3AKR1_BRAOL; Uncharacterized protein
STRING	Bo2g024870.1	1e-100	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM18738	4	8

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G60440.1	7e-49	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]