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

Tp57577_TGAC_v2_mRNA3977

Organism

Trifolium pratense

Taxonomic ID

57577

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Trifolium

Family

M-type_MADS

Protein Properties

Length: 220aa MW: 24990.6 Da PI: 9.8763

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Tp57577_TGAC_v2_mRNA3977	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	65	7.8e-21	18	64	3	49
--SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS SRF-TF 3 ienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49 i ks qvtfskRr g++KKA+ELS+LC++e+a+++fs+ +k + + Tp57577_TGAC_v2_mRNA3977 18 ILKKSHLQVTFSKRRSGLFKKASELSTLCGVEIAIVVFSPADKAFSF 64 6678999*********************************9987655 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	3.9E-29	8	67	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	23.521	8	68	IPR002100	Transcription factor, MADS-box
CDD	cd00265	5.40E-31	9	76	No hit	No description
SuperFamily	SSF55455	5.76E-26	9	85	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.9E-17	10	30	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	1.4E-23	17	64	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.9E-17	30	45	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.9E-17	45	66	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: 220 aa Download sequence Send to blast
MSKKKSTLGR QKIPIEKILK KSHLQVTFSK RRSGLFKKAS ELSTLCGVEI AIVVFSPADK 60 AFSFGHPEVE AIVDRYFTRN PPQESSAHQL VEVHRNANVR DLNIQLTQLL NHLEIEKKQG 120 EEIEHIRKDR QKKFWWESPI DELGLNELIQ LKGSIEELKQ NIGKFANKCM MEQANVFSPN 180 VGANGFGRYD SLDNKFGVGI NIAPPFSNGY YLNFRNGYL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5f28_A	1e-17	8	88	1	81	MEF2C
5f28_B	1e-17	8	88	1	81	MEF2C
5f28_C	1e-17	8	88	1	81	MEF2C
5f28_D	1e-17	8	88	1	81	MEF2C
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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	Tp57577_TGAC_v2_mRNA3977

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004511261.1	1e-138	agamous-like MADS-box protein AGL61
Swissprot	Q9FKK2	5e-52	AGL62_ARATH; Agamous-like MADS-box protein AGL62
TrEMBL	A0A1S2YWY3	1e-137	A0A1S2YWY3_CICAR; agamous-like MADS-box protein AGL61
STRING	XP_004511261.1	1e-138	(Cicer arietinum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF128	33	331

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G60440.1	2e-54	AGAMOUS-like 62

Link Out ? help Back to Top
Phytozome	Tp57577_TGAC_v2_mRNA3977

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]