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

RrC6240_p2

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

MIKC_MADS

Protein Properties

Length: 234aa MW: 27007.6 Da PI: 7.4619

Description

MIKC_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC6240_p2	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	43.1	5.2e-14	18	46	23	51
HHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 23 KAeELSvLCdaevaviifsstgklyeyss 51 A+ELSvLCdae+a++ifs++gklye++s RrC6240_p2 18 QAYELSVLCDAEIALLIFSNRGKLYEFCS 46 69*************************96 PP
2	K-box	72.9	9.3e-25	69	145	8	84
K-box 8 sleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkke 84 ++++++ ++ +q++ +Lk+++e Lq++qRhllGe++ + + eL+qLe+q+++sl++iRs+K+e+lle ++l++k RrC6240_p2 69 NQSAKDLQEKYQDYLNLKSRVEVLQHSQRHLLGEEIAGMGVDELEQLERQVDTSLRQIRSTKEEMLLETNRDLKRKV 145 3688899*******************************************************************996 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50066	18.152	1	48	IPR002100	Transcription factor, MADS-box
SMART	SM00432	1.4E-21	1	47	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	1.57E-19	2	66	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	1.4E-10	9	44	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	8.4E-12	10	25	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	8.4E-12	25	46	IPR002100	Transcription factor, MADS-box
Pfam	PF01486	7.0E-20	73	145	IPR002487	Transcription factor, K-box
PROSITE profile	PS51297	12.58	75	178	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: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: 234 aa Download sequence Send to blast
MGRGKVELKR IENKINRQAY ELSVLCDAEI ALLIFSNRGK LYEFCSSPSG MAKTVEKYRK 60 HSYATMDPNQ SAKDLQEKYQ DYLNLKSRVE VLQHSQRHLL GEEIAGMGVD ELEQLERQVD 120 TSLRQIRSTK EEMLLETNRD LKRKVVPSEY YSDAALNQTL WGASSSVEHS QQQQIGMASY 180 HENPPSQEVG FFRPLQGNSL QSWCGKCKQL CNNITECYQW ILPWMDGLKK IHIN

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ox0_A	1e-12	80	146	22	102	Developmental protein SEPALLATA 3
4ox0_B	1e-12	80	146	22	102	Developmental protein SEPALLATA 3
4ox0_C	1e-12	80	146	22	102	Developmental protein SEPALLATA 3
4ox0_D	1e-12	80	146	22	102	Developmental protein SEPALLATA 3
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Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor that binds specifically to the CArG box DNA sequence 5'-CC (A/T)6 GG-3' (PubMed:7632923, PubMed:25183521). Plays an important role in the determination of flower meristem identity. Involved in the specification of sepal identity. Contributes to the development of petals, stamens and carpels (PubMed:15530395). {ECO:0000269\|PubMed:15530395, ECO:0000269\|PubMed:25183521, ECO:0000269\|PubMed:7632923}.

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	AJ508052	1e-161	AJ508052.1 Brassica oleracea var. botrytis mRNA for MADS-box protein AGL3-a (agl3-a gene).

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018481405.1	1e-127	PREDICTED: agamous-like MADS-box protein AGL3
Refseq	XP_018481406.1	1e-127	PREDICTED: agamous-like MADS-box protein AGL3
Refseq	XP_018481407.1	1e-127	PREDICTED: agamous-like MADS-box protein AGL3
Swissprot	P29383	1e-103	AGL3_ARATH; Agamous-like MADS-box protein AGL3
TrEMBL	A0A0D3DAN8	1e-118	A0A0D3DAN8_BRAOL; Uncharacterized protein
STRING	Bo7g081460.1	1e-119	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM7135	24	40

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G03710.1	1e-105	MIKC_MADS family protein

Publications ? help Back to Top
Maejima K, et al. Degradation of class E MADS-domain transcription factors in Arabidopsis by a phytoplasmal effector, phyllogen. Plant Signal Behav, 2015. 10(8): p. e1042635 [PMID:26179462]