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

676742362

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: 87aa MW: 9747.14 Da PI: 9.9135

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
676742362	genome	VEGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	100.7	5.4e-32	24	74	1	51
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva++ifs++g+lyey++ 676742362 24 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALVIFSTRGRLYEYAN 74 79***********************************************85 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	9.1E-40	16	75	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	33.389	16	76	IPR002100	Transcription factor, MADS-box
CDD	cd00265	1.20E-39	17	79	No hit	No description
SuperFamily	SSF55455	1.57E-30	17	78	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.4E-33	18	38	IPR002100	Transcription factor, MADS-box
PROSITE pattern	PS00350	0	18	72	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	3.8E-27	25	72	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.4E-33	38	53	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.4E-33	53	74	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: 87 aa Download sequence Send to blast
MEGGASNEVA ESSKKIGRGK IEIKRIENTT NRQVTFCKRR NGLLKKAYEL SVLCDAEVAL 60 VIFSTRGRLY EYANNSFSEP QFSVGKL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1tqe_P	2e-21	16	81	1	76	Myocyte-specific enhancer factor 2B
1tqe_Q	2e-21	16	81	1	76	Myocyte-specific enhancer factor 2B
1tqe_R	2e-21	16	81	1	76	Myocyte-specific enhancer factor 2B
1tqe_S	2e-21	16	81	1	76	Myocyte-specific enhancer factor 2B
6c9l_A	2e-21	16	81	1	76	Myocyte-specific enhancer factor 2B
6c9l_B	2e-21	16	81	1	76	Myocyte-specific enhancer factor 2B
6c9l_C	2e-21	16	81	1	76	Myocyte-specific enhancer factor 2B
6c9l_D	2e-21	16	81	1	76	Myocyte-specific enhancer factor 2B
6c9l_E	2e-21	16	81	1	76	Myocyte-specific enhancer factor 2B
6c9l_F	2e-21	16	81	1	76	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	676742362

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC006931	1e-109	AC006931.6 Arabidopsis thaliana chromosome 2 clone F7D19 map m551, complete sequence.
GenBank	AY727652	1e-109	AY727652.1 Arabidopsis thaliana ecotype Li-3 SHATTERPROOF2 (SHP2) gene, complete cds.
GenBank	AY727653	1e-109	AY727653.1 Arabidopsis thaliana ecotype Lu-1 SHATTERPROOF2 (SHP2) gene, complete cds.
GenBank	AY727654	1e-109	AY727654.1 Arabidopsis thaliana ecotype Mt-0 SHATTERPROOF2 (SHP2) gene, complete cds.
GenBank	AY727655	1e-109	AY727655.1 Arabidopsis thaliana ecotype PLA-0 SHATTERPROOF2 (SHP2) gene, complete cds.
GenBank	AY727656	1e-109	AY727656.1 Arabidopsis thaliana ecotype Pog-0 SHATTERPROOF2 (SHP2) gene, complete cds.
GenBank	AY727657	1e-109	AY727657.1 Arabidopsis thaliana ecotype Tsu-1 SHATTERPROOF2 (SHP2) gene, complete cds.
GenBank	AY727658	1e-109	AY727658.1 Arabidopsis thaliana ecotype PHW-1 SHATTERPROOF2 (SHP2) gene, complete cds.
GenBank	AY727659	1e-109	AY727659.1 Arabidopsis thaliana ecotype PHW-33 SHATTERPROOF2 (SHP2) gene, complete cds.
GenBank	AY727661	1e-109	AY727661.1 Arabidopsis thaliana ecotype An-2 SHATTERPROOF2 (SHP2) gene, complete cds.
GenBank	AY727662	1e-109	AY727662.1 Arabidopsis thaliana ecotype Br-0 SHATTERPROOF2 (SHP2) gene, complete cds.
GenBank	AY727663	1e-109	AY727663.1 Arabidopsis thaliana ecotype Cha-0 SHATTERPROOF2 (SHP2) gene, complete cds.
GenBank	AY727664	1e-109	AY727664.1 Arabidopsis thaliana ecotype Di-0 SHATTERPROOF2 (SHP2) gene, complete cds.
GenBank	AY727665	1e-109	AY727665.1 Arabidopsis thaliana ecotype Est-1 SHATTERPROOF2 (SHP2) gene, complete cds.
GenBank	AY727666	1e-109	AY727666.1 Arabidopsis thaliana ecotype Kl-5 SHATTERPROOF2 (SHP2) gene, complete cds.
GenBank	AY727667	1e-109	AY727667.1 Arabidopsis thaliana ecotype Ko-2 SHATTERPROOF2 (SHP2) gene, complete cds.
GenBank	AY727668	1e-109	AY727668.1 Arabidopsis thaliana ecotype Lip-0 SHATTERPROOF2 (SHP2) gene, complete cds.
GenBank	AY727669	1e-109	AY727669.1 Arabidopsis thaliana ecotype 9481B SHATTERPROOF2 (SHP2) gene, complete cds.
GenBank	BT029453	1e-109	BT029453.1 Arabidopsis thaliana At2g42830 mRNA, complete cds.
GenBank	CP002685	1e-109	CP002685.1 Arabidopsis thaliana chromosome 2, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_024016862.1	1e-47	agamous-like MADS-box protein AGL5 isoform X2
Swissprot	P29385	2e-48	AGL5_ARATH; Agamous-like MADS-box protein AGL5
TrEMBL	A0A178VRQ3	6e-47	A0A178VRQ3_ARATH; Uncharacterized protein
TrEMBL	A0A178VTG2	7e-47	A0A178VTG2_ARATH; Uncharacterized protein
TrEMBL	A0A1J3GA74	5e-46	A0A1J3GA74_NOCCA; Agamous-like MADS-box protein AGL5
TrEMBL	V4LR27	3e-46	V4LR27_EUTSA; Uncharacterized protein
STRING	Bostr.25993s0500.1.p	7e-47	(Boechera stricta)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM78	28	413

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G42830.2	4e-38	MIKC_MADS family protein

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Pabón-Mora N,Wong GK,Ambrose BA Evolution of fruit development genes in flowering plants. Front Plant Sci, 2014. 5: p. 300 [PMID:25018763] Rathnakumar K, et al. Angiopoietin-2 mediates thrombin-induced monocyte adhesion and endothelial permeability. J. Thromb. Haemost., 2016. 14(8): p. 1655-67 [PMID:27241812] Balanzà V,Roig-Villanova I,Di Marzo M,Masiero S,Colombo L Seed abscission and fruit dehiscence required for seed dispersal rely on similar genetic networks. Development, 2016. 143(18): p. 3372-81 [PMID:27510967] 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] Sehra B,Franks RG Redundant CArG Box Cis-motif Activity Mediates SHATTERPROOF2 Transcriptional Regulation during Arabidopsis thaliana Gynoecium Development. Front Plant Sci, 2017. 8: p. 1712 [PMID:29085379] Ó'Maoiléidigh DS,Stewart D,Zheng B,Coupland G,Wellmer F Floral homeotic proteins modulate the genetic program for leaf development to suppress trichome formation in flowers. Development, 2018. [PMID:29361563]