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

Sopim04g025050.0.1

Organism

Solanum pimpinellifolium

Taxonomic ID

4084

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: 57aa MW: 6303.53 Da PI: 10.7883

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sopim04g025050.0.1	genome	CSHL	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	56.5	3.4e-18	2	47	4	49
-SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS SRF-TF 4 enksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49 +n++n vtfsk r g++KK + L+ LC+ae+++++fs++gk++ + Sopim04g025050.0.1 2 KNTRNLRVTFSKHRVGLFKKDSKLCMLCGAEISIVVFSPNGKVFSF 47 799****************************************988 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	1.7E-10	1	50	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	17.311	1	51	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	1.5E-19	2	47	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	7.72E-17	2	54	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	9.2E-9	13	28	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	9.2E-9	28	49	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: 57 aa Download sequence Send to blast
MKNTRNLRVT FSKHRVGLFK KDSKLCMLCG AEISIVVFSP NGKVFSFGHL SMDTLI*

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}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	HG975516	3e-88	HG975516.1 Solanum lycopersicum chromosome ch04, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015169063.1	6e-23	PREDICTED: agamous-like MADS-box protein AGL62
Swissprot	Q9FKK2	3e-21	AGL62_ARATH; Agamous-like MADS-box protein AGL62
TrEMBL	A0A3Q7G302	1e-31	A0A3Q7G302_SOLLC; Uncharacterized protein
STRING	Solyc04g025050.1.1	2e-32	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA204	24	223

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G60440.1	1e-23	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]