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_04677.1_g00002.1

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

MIKC_MADS

Protein Properties

Length: 202aa MW: 23351 Da PI: 9.9691

Description

MIKC_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_04677.1_g00002.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	88.2	4.3e-28	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 Rsa1.0_04677.1_g00002.1 9 KKIENTTSRQVTFSKRRKGLFKKAHELSVLCDSQVAAIIFSQKGRLYDFAS 59 68***********************************************86 PP
2	K-box	67.2	5.4e-23	85	171	11	97
K-box 11 eakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrk 96 e+ + l++++ + ++ie+L+ +R+l+G++L s+s+keLq++ +q+eksl +Rs+K +l+ ++ie+l+ ke+el++e +L+ Rsa1.0_04677.1_g00002.1 85 EQYVQGLKNDMVTMVEKIEMLEVHNRKLMGQNLASCSVKELQEIATQIEKSLHIVRSRKAKLYEDEIEKLKAKERELKDERVRLSG 170 5667889999**********999*****************************************************999876 PP K-box 97 k 97 + Rsa1.0_04677.1_g00002.1 171 R 171 5 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	31.006	1	61	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.3E-28	3	23	IPR002100	Transcription factor, MADS-box
CDD	cd00265	1.99E-38	3	73	No hit	No description
SuperFamily	SSF55455	3.14E-30	3	83	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	9.2E-26	10	57	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.3E-28	23	38	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.3E-28	38	59	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS51297	12.885	88	178	IPR002487	Transcription factor, K-box
Pfam	PF01486	9.3E-22	89	170	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:0009909	Biological Process	regulation of flower development
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: 202 aa Download sequence Send to blast
MVRGKIQIKK IENTTSRQVT FSKRRKGLFK KAHELSVLCD SQVAAIIFSQ KGRLYDFASS 60 DIQKTINRYA EYKREYFVAE SHPIEQYVQG LKNDMVTMVE KIEMLEVHNR KLMGQNLASC 120 SVKELQEIAT QIEKSLHIVR SRKAKLYEDE IEKLKAKERE LKDERVRLSG RVGEIPMGTP 180 SSSKEKEDVE TDLVIGYPKS RP

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1tqe_P	3e-20	1	72	1	72	Myocyte-specific enhancer factor 2B
1tqe_Q	3e-20	1	72	1	72	Myocyte-specific enhancer factor 2B
1tqe_R	3e-20	1	72	1	72	Myocyte-specific enhancer factor 2B
1tqe_S	3e-20	1	72	1	72	Myocyte-specific enhancer factor 2B
5f28_A	4e-20	1	72	1	72	MEF2C
5f28_B	4e-20	1	72	1	72	MEF2C
5f28_C	4e-20	1	72	1	72	MEF2C
5f28_D	4e-20	1	72	1	72	MEF2C
6c9l_A	3e-20	1	72	1	72	Myocyte-specific enhancer factor 2B
6c9l_B	3e-20	1	72	1	72	Myocyte-specific enhancer factor 2B
6c9l_C	3e-20	1	72	1	72	Myocyte-specific enhancer factor 2B
6c9l_D	3e-20	1	72	1	72	Myocyte-specific enhancer factor 2B
6c9l_E	3e-20	1	72	1	72	Myocyte-specific enhancer factor 2B
6c9l_F	3e-20	1	72	1	72	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_04677.1_g00002.1

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018454348.1	1e-147	PREDICTED: MADS-box protein AGL72
Refseq	XP_018454349.1	1e-147	PREDICTED: MADS-box protein AGL72
Swissprot	Q9FLH5	1e-121	AGL72_ARATH; MADS-box protein AGL72
TrEMBL	M4EHL7	1e-136	M4EHL7_BRARP; Uncharacterized protein
STRING	Bra028282.1-P	1e-136	(Brassica rapa)

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-126	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]