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

Thhalv10006196m

Common Name

EUTSA_v10006196mg

Organism

Eutrema salsugineum

Taxonomic ID

72664

Taxonomic Lineage

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

Family

MIKC_MADS

Protein Properties

Length: 250aa MW: 28420.9 Da PI: 9.211

Description

MIKC_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thhalv10006196m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	97.6	5.1e-31	24	73	1	50
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50 krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva++ifs++g+lyey+ Thhalv10006196m 24 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALVIFSTRGRLYEYA 73 79***********************************************8 PP
2	K-box	113.3	2.3e-37	95	188	7	100
K-box 7 ksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100 s++ea+++++qqe++kL+++i+ +q+++Rh++Ge+L+sL++keL++Le +Lek+++++RskK+ell+++ie++qk+e elq++n +Lr+k++e Thhalv10006196m 95 PSVTEANTQYYQQEASKLRRQIRDIQNSNRHIVGESLGSLNFKELKNLEGRLEKGISRVRSKKSELLVAEIEYMQKREMELQHDNLYLRAKIAE 188 45899**************************************************************************************986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	1.3E-39	16	75	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	33.375	16	76	IPR002100	Transcription factor, MADS-box
CDD	cd00265	9.07E-44	17	90	No hit	No description
SuperFamily	SSF55455	1.96E-32	17	88	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.2E-32	18	38	IPR002100	Transcription factor, MADS-box
PROSITE pattern	PS00350	0	18	72	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	3.3E-26	25	72	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.2E-32	38	53	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.2E-32	53	74	IPR002100	Transcription factor, MADS-box
Pfam	PF01486	6.3E-27	100	186	IPR002487	Transcription factor, K-box
PROSITE profile	PS51297	14.993	102	192	IPR002487	Transcription factor, K-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0048481	Biological Process	plant ovule development
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 250 aa Download sequence Send to blast
MEEGGSSHDA DSSKKLGRGK IEIKRIENTT NRQVTFCKRR NGLLKKAYEL SVLCDAEVAL 60 VIFSTRGRLY EYANNSVRGT IERYKKACSD AVNPPSVTEA NTQYYQQEAS KLRRQIRDIQ 120 NSNRHIVGES LGSLNFKELK NLEGRLEKGI SRVRSKKSEL LVAEIEYMQK REMELQHDNL 180 YLRAKIAEGA RLNQEQQESS VIQGTAVYES GVSSHDQTQH YNNRNYIPVN LLEPNQQFSG 240 QDQPPLQLV*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1tqe_P	4e-20	16	84	1	69	Myocyte-specific enhancer factor 2B
1tqe_Q	4e-20	16	84	1	69	Myocyte-specific enhancer factor 2B
1tqe_R	4e-20	16	84	1	69	Myocyte-specific enhancer factor 2B
1tqe_S	4e-20	16	84	1	69	Myocyte-specific enhancer factor 2B
5f28_A	4e-20	16	84	1	69	MEF2C
5f28_B	4e-20	16	84	1	69	MEF2C
5f28_C	4e-20	16	84	1	69	MEF2C
5f28_D	4e-20	16	84	1	69	MEF2C
6c9l_A	4e-20	16	84	1	69	Myocyte-specific enhancer factor 2B
6c9l_B	4e-20	16	84	1	69	Myocyte-specific enhancer factor 2B
6c9l_C	4e-20	16	84	1	69	Myocyte-specific enhancer factor 2B
6c9l_D	4e-20	16	84	1	69	Myocyte-specific enhancer factor 2B
6c9l_E	4e-20	16	84	1	69	Myocyte-specific enhancer factor 2B
6c9l_F	4e-20	16	84	1	69	Myocyte-specific enhancer factor 2B
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Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. Interacts genetically with TT16/AGL32 in a partially antagonistic manner during flower development. Is essential for the coordination of cell divisions in ovule, seed coat development and endosperm formation (PubMed:27776173). {ECO:0000269\|PubMed:27776173}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00093	SELEX	Transfer from AT3G58780	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Thhalv10006196m

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	ATHAGL1A	0.0	M55550.1 Arabidopsis thaliana transcription factor (AGL1), complete cds.
GenBank	AY086196	0.0	AY086196.1 Arabidopsis thaliana clone 22339 mRNA, complete sequence.
GenBank	DQ653159	0.0	DQ653159.1 Arabidopsis thaliana clone 0000017184_0000012028 unknown mRNA.
GenBank	JQ973091	0.0	JQ973091.1 Arabidopsis thaliana Shatterproof (SHP1) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006402748.1	0.0	agamous-like MADS-box protein AGL1 isoform X2
Refseq	XP_024012819.1	0.0	agamous-like MADS-box protein AGL1 isoform X1
Refseq	XP_024012820.1	0.0	agamous-like MADS-box protein AGL1 isoform X2
Refseq	XP_024012821.1	0.0	agamous-like MADS-box protein AGL1 isoform X2
Swissprot	P29381	1e-177	AGL1_ARATH; Agamous-like MADS-box protein AGL1
TrEMBL	V4NDT4	0.0	V4NDT4_EUTSA; Uncharacterized protein
STRING	XP_006402748.1	0.0	(Eutrema salsugineum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3341	23	50

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G58780.1	1e-180	MIKC_MADS family protein

Link Out ? help Back to Top
Phytozome	Thhalv10006196m
Entrez Gene	18020146

Publications ? help Back to Top
Matalon O, et al. Dephosphorylation of the adaptor LAT and phospholipase C-γ by SHP-1 inhibits natural killer cell cytotoxicity. Sci Signal, 2016. 9(429): p. ra54 [PMID:27221712] Ehlers K, et al. The MADS Box Genes ABS, SHP1, and SHP2 Are Essential for the Coordination of Cell Divisions in Ovule and Seed Coat Development and for Endosperm Formation in Arabidopsis thaliana. PLoS ONE, 2016. 11(10): p. e0165075 [PMID:27776173]