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

RrC625_p5

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: 291aa MW: 33228.9 Da PI: 4.5549

Description

MIKC_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC625_p5	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	82.6	2.5e-26	9	58	1	50
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50 krien++nrqvtfskRrng++KKA+ELS+LCd+++a+++fs++++l +s RrC625_p5 9 KRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALLMFSPSDRLSLFS 58 79******************************************998776 PP
2	K-box	21.4	1e-08	79	162	5	88
K-box 5 sgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelq 88 ++ s+ +++ ++l+qe+ +L++++++ ++e+R++ + +++e + e+qL + l+++ ++++++l +q++ ++q RrC625_p5 79 ESPSAINSDVQELEQEVYRLQQQLHMAEEELRKYEPDPTRFTTMEEYETCEKQLIETLTHVTQRREHILSDQLSSYETSAMQHQ 162 5555778899**************************************************************998877666555 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50066	28.819	1	61	IPR002100	Transcription factor, MADS-box
SMART	SM00432	2.1E-35	1	60	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	2.09E-28	2	78	IPR002100	Transcription factor, MADS-box
CDD	cd00265	7.81E-34	2	75	No hit	No description
PROSITE pattern	PS00350	0	3	57	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.5E-24	3	23	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	3.0E-24	10	55	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.5E-24	23	38	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.5E-24	38	59	IPR002100	Transcription factor, MADS-box
Pfam	PF01486	2.7E-6	87	162	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:0010152	Biological Process	pollen maturation
GO:0080092	Biological Process	regulation of pollen tube growth
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: 291 aa Download sequence Send to blast
MGRVKLEIKR IENNTNRQVT FSKRRNGLIK KAYELSILCD IDIALLMFSP SDRLSLFSGK 60 TRVEDVFTRF INLPDQERES PSAINSDVQE LEQEVYRLQQ QLHMAEEELR KYEPDPTRFT 120 TMEEYETCEK QLIETLTHVT QRREHILSDQ LSSYETSAMQ HQNMGGPFVN DVAGGWLAEN 180 GPIQTQLFDA STNSAIYETL LQGSSSSSNQ NNNMSECNVT NHNGDMFQEW AQAYTSTTGL 240 NPSALFPPMQ HQHGVVDPNV KESEMPVITR EAQADHEVSD YDIRMPQLSS Q

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1tqe_P	2e-16	1	54	1	54	Myocyte-specific enhancer factor 2B
1tqe_Q	2e-16	1	54	1	54	Myocyte-specific enhancer factor 2B
1tqe_R	2e-16	1	54	1	54	Myocyte-specific enhancer factor 2B
1tqe_S	2e-16	1	54	1	54	Myocyte-specific enhancer factor 2B
6byy_A	3e-16	1	54	1	54	MEF2 CHIMERA
6byy_B	3e-16	1	54	1	54	MEF2 CHIMERA
6byy_C	3e-16	1	54	1	54	MEF2 CHIMERA
6byy_D	3e-16	1	54	1	54	MEF2 CHIMERA
6bz1_A	2e-16	1	54	1	54	MEF2 CHIMERA
6bz1_B	2e-16	1	54	1	54	MEF2 CHIMERA
6bz1_C	2e-16	1	54	1	54	MEF2 CHIMERA
6bz1_D	2e-16	1	54	1	54	MEF2 CHIMERA
6c9l_A	2e-16	1	54	1	54	Myocyte-specific enhancer factor 2B
6c9l_B	2e-16	1	54	1	54	Myocyte-specific enhancer factor 2B
6c9l_C	2e-16	1	54	1	54	Myocyte-specific enhancer factor 2B
6c9l_D	2e-16	1	54	1	54	Myocyte-specific enhancer factor 2B
6c9l_E	2e-16	1	54	1	54	Myocyte-specific enhancer factor 2B
6c9l_F	2e-16	1	54	1	54	Myocyte-specific enhancer factor 2B
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Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor that forms a heterodimer with the MADS-box protein AGL30 and is involved in the regulation of pollen maturation at the late stages of pollen development and pollen tube growth. {ECO:0000269\|PubMed:19211705}.

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	AC189414	1e-164	AC189414.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB061K11, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018455254.1	0.0	PREDICTED: agamous-like MADS-box protein AGL66
Swissprot	Q1PFC2	1e-171	AGL66_ARATH; Agamous-like MADS-box protein AGL66
TrEMBL	A0A0D3D1G9	0.0	A0A0D3D1G9_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6HFH2	0.0	A0A3P6HFH2_BRAOL; Uncharacterized protein
STRING	Bo6g121640.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2179	23	65

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G77980.1	1e-168	AGAMOUS-like 66

Publications ? help Back to Top
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]