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_02433.1_g00012.1

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: 76aa MW: 8580.89 Da PI: 10.188

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_02433.1_g00012.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	101	4.5e-32	24	74	1	51
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+++fs++g+lyey++ Rsa1.0_02433.1_g00012.1 24 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALVVFSTRGRLYEYAN 74 79***********************************************85 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	3.6E-40	16	75	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	33.277	16	76	IPR002100	Transcription factor, MADS-box
CDD	cd00265	2.54E-38	17	75	No hit	No description
SuperFamily	SSF55455	8.5E-30	17	75	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.2E-33	18	38	IPR002100	Transcription factor, MADS-box
PROSITE pattern	PS00350	0	18	72	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	1.8E-27	25	72	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.2E-33	38	53	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.2E-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: 76 aa Download sequence Send to blast
MEGGASNEVA ESIKKIGRGK IEIKRIENTT NRQVTFCKRR NGLLKKAYEL SVLCDAEVAL 60 VVFSTRGRLY EYANSR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1tqe_P	3e-21	16	75	1	60	Myocyte-specific enhancer factor 2B
1tqe_Q	3e-21	16	75	1	60	Myocyte-specific enhancer factor 2B
1tqe_R	3e-21	16	75	1	60	Myocyte-specific enhancer factor 2B
1tqe_S	3e-21	16	75	1	60	Myocyte-specific enhancer factor 2B
6c9l_A	3e-21	16	75	1	60	Myocyte-specific enhancer factor 2B
6c9l_B	3e-21	16	75	1	60	Myocyte-specific enhancer factor 2B
6c9l_C	3e-21	16	75	1	60	Myocyte-specific enhancer factor 2B
6c9l_D	3e-21	16	75	1	60	Myocyte-specific enhancer factor 2B
6c9l_E	3e-21	16	75	1	60	Myocyte-specific enhancer factor 2B
6c9l_F	3e-21	16	75	1	60	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	Rsa1.0_02433.1_g00012.1

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	AC189588	1e-97	AC189588.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH012N11, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018483390.1	6e-47	PREDICTED: LOW QUALITY PROTEIN: agamous-like MADS-box protein AGL5
Swissprot	P29385	6e-46	AGL5_ARATH; Agamous-like MADS-box protein AGL5
TrEMBL	A0A178VRQ3	4e-45	A0A178VRQ3_ARATH; Uncharacterized protein
STRING	Bo4g017290.1	3e-45	(Brassica oleracea)
STRING	Bostr.25993s0500.1.p	2e-44	(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	7e-36	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]