PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

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: 61aa MW: 6975.15 Da PI: 11.0122

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC24709_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	92.4	2.2e-29	9	59	1	51
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 k+ien++ rqvtfskRr+g++KKA+ELSvLCd +va iifs++g+ly+++s RrC24709_p1 9 KKIENTTSRQVTFSKRRKGLFKKAHELSVLCDSQVAAIIFSQKGRLYDFAS 59 78***********************************************86 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	1.5E-39	1	60	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	30.894	1	61	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.4E-29	3	23	IPR002100	Transcription factor, MADS-box
CDD	cd00265	2.97E-34	3	60	No hit	No description
SuperFamily	SSF55455	7.46E-28	3	60	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	5.1E-27	10	57	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.4E-29	23	38	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.4E-29	38	59	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: 61 aa Download sequence Send to blast
MVRGKIQIKK IENTTSRQVT FSKRRKGLFK KAHELSVLCD SQVAAIIFSQ KGRLYDFASS 60 E

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1tqe_P	1e-17	1	61	1	61	Myocyte-specific enhancer factor 2B
1tqe_Q	1e-17	1	61	1	61	Myocyte-specific enhancer factor 2B
1tqe_R	1e-17	1	61	1	61	Myocyte-specific enhancer factor 2B
1tqe_S	1e-17	1	61	1	61	Myocyte-specific enhancer factor 2B
6c9l_A	1e-17	1	61	1	61	Myocyte-specific enhancer factor 2B
6c9l_B	1e-17	1	61	1	61	Myocyte-specific enhancer factor 2B
6c9l_C	1e-17	1	61	1	61	Myocyte-specific enhancer factor 2B
6c9l_D	1e-17	1	61	1	61	Myocyte-specific enhancer factor 2B
6c9l_E	1e-17	1	61	1	61	Myocyte-specific enhancer factor 2B
6c9l_F	1e-17	1	61	1	61	Myocyte-specific enhancer factor 2B
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	MADS-box transcription factor that acts with AGL42 and AGL71 in the control of flowering time. Promotes flowering at the shoot apical and axillary meristems. Seems to act through a gibberellin-dependent pathway. Interacts genetically with SOC1 and its expression is directly regulated by SOC1. {ECO:0000269\|PubMed:21609362}.

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	AC232439	1e-63	AC232439.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB003D07, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018454348.1	6e-36	PREDICTED: MADS-box protein AGL72
Refseq	XP_018454349.1	6e-36	PREDICTED: MADS-box protein AGL72
Swissprot	Q9FLH5	5e-33	AGL72_ARATH; MADS-box protein AGL72
TrEMBL	A0A078JPQ5	5e-34	A0A078JPQ5_BRANA; BnaAnng28250D protein
TrEMBL	A0A0D2ZSG4	3e-34	A0A0D2ZSG4_BRAOL; Uncharacterized protein
TrEMBL	M4EHL7	6e-34	M4EHL7_BRARP; Uncharacterized protein
STRING	Bra028282.1-P	1e-34	(Brassica rapa)
STRING	Bo00946s010.1	5e-35	(Brassica oleracea)

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
AT5G51860.2	1e-35	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]