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

Sopen12g029050.1

Organism

Solanum pennellii

Taxonomic ID

28526

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon

Family

MIKC_MADS

Protein Properties

Length: 206aa MW: 23978.5 Da PI: 9.1111

Description

MIKC_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sopen12g029050.1	genome	spenn	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	91.2	5.3e-29	9	59	1	51
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 krien++ rqvtfskRr g+lKKA+ELSvLCdaev++iifs++gkl+e+ss Sopen12g029050.1 9 KRIENTTSRQVTFSKRRGGLLKKAFELSVLCDAEVSLIIFSQKGKLFEFSS 59 79***********************************************96 PP
2	K-box	71.4	2.7e-24	82	172	9	99
K-box 9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 l e+++e+l+ e+ + +++e L+ ++R+llGedLes+s+ eL+++e qL++sl++iR+kKn+l++eqi+ l+ kek l ++n +Lr+k+e Sopen12g029050.1 82 LLEQTTEHLKGEVMSMTRNLEVLEISKRRLLGEDLESCSIDELEKVEGQLDQSLRNIRAKKNQLFKEQISLLKDKEKVLMKKNAELREKYE 172 77899***********************************************************************************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	1.1E-38	1	60	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	31.314	1	61	IPR002100	Transcription factor, MADS-box
PROSITE pattern	PS00350	0	3	57	IPR002100	Transcription factor, MADS-box
CDD	cd00265	5.15E-41	3	72	No hit	No description
PRINTS	PR00404	3.1E-30	3	23	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	4.97E-32	3	73	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	7.3E-25	10	57	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	3.1E-30	23	38	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	3.1E-30	38	59	IPR002100	Transcription factor, MADS-box
Pfam	PF01486	6.2E-24	86	171	IPR002487	Transcription factor, K-box
PROSITE profile	PS51297	14.085	87	177	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: 206 aa Download sequence Send to blast
MVRGKTEIKR IENTTSRQVT FSKRRGGLLK KAFELSVLCD AEVSLIIFSQ KGKLFEFSSS 60 STNKTIERYQ KNDKNLGHEN ILLEQTTEHL KGEVMSMTRN LEVLEISKRR LLGEDLESCS 120 IDELEKVEGQ LDQSLRNIRA KKNQLFKEQI SLLKDKEKVL MKKNAELREK YEARSLPLFI 180 DRREDESPQT QNMEVDTQLF IGLPER

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1egw_A	1e-18	3	80	2	77	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_B	1e-18	3	80	2	77	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_C	1e-18	3	80	2	77	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_D	1e-18	3	80	2	77	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
5f28_A	1e-18	1	69	1	69	MEF2C
5f28_B	1e-18	1	69	1	69	MEF2C
5f28_C	1e-18	1	69	1	69	MEF2C
5f28_D	1e-18	1	69	1	69	MEF2C
6byy_A	1e-18	1	69	1	69	MEF2 CHIMERA
6byy_B	1e-18	1	69	1	69	MEF2 CHIMERA
6byy_C	1e-18	1	69	1	69	MEF2 CHIMERA
6byy_D	1e-18	1	69	1	69	MEF2 CHIMERA
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Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor active in flowering time control. May control internode elongation and promote floral transition phase. May act upstream of the floral regulators MADS1, MADS14, MADS15 and MADS18 in the floral induction pathway. {ECO:0000269\|PubMed:15144377, ECO:0000269\|PubMed:17166135}.

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	HG975451	1e-96	HG975451.1 Solanum pennellii chromosome ch12, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015060634.1	1e-146	MADS-box protein SOC1-like
Refseq	XP_015060635.1	1e-146	MADS-box protein SOC1-like
Refseq	XP_015060637.1	1e-146	MADS-box protein SOC1-like
Swissprot	Q9XJ60	1e-69	MAD50_ORYSJ; MADS-box transcription factor 50
TrEMBL	A0A3Q7JBV6	1e-142	A0A3Q7JBV6_SOLLC; Uncharacterized protein
STRING	Solyc12g056460.1.1	1e-143	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA40	24	625

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G45660.1	7e-71	AGAMOUS-like 20

Publications ? help Back to Top
Thomson MJ,Edwards JD,Septiningsih EM,Harrington SE,McCouch SR Substitution mapping of dth1.1, a flowering-time quantitative trait locus (QTL) associated with transgressive variation in rice, reveals multiple sub-QTL. Genetics, 2006. 172(4): p. 2501-14 [PMID:16452146] Park SJ, et al. Rice Indeterminate 1 (OsId1) is necessary for the expression of Ehd1 (Early heading date 1) regardless of photoperiod. Plant J., 2008. 56(6): p. 1018-29 [PMID:18774969] Lee S,Jeong DH,An G A possible working mechanism for rice SVP-group MADS-box proteins as negative regulators of brassinosteroid responses. Plant Signal Behav, 2008. 3(7): p. 471-4 [PMID:19704489] Maas LF,McClung A,McCouch S Dissection of a QTL reveals an adaptive, interacting gene complex associated with transgressive variation for flowering time in rice. Theor. Appl. Genet., 2010. 120(5): p. 895-908 [PMID:19949767] Sun C, et al. The histone methyltransferase SDG724 mediates H3K36me2/3 deposition at MADS50 and RFT1 and promotes flowering in rice. Plant Cell, 2012. 24(8): p. 3235-47 [PMID:22892321] Choi SC, et al. Trithorax group protein Oryza sativa Trithorax1 controls flowering time in rice via interaction with early heading date3. Plant Physiol., 2014. 164(3): p. 1326-37 [PMID:24420930] Núñez-López L,Aguirre-Cruz A,Barrera-Figueroa BE,Peña-Castro JM Improvement of enzymatic saccharification yield in Arabidopsis thaliana by ectopic expression of the rice SUB1A-1 transcription factor. PeerJ, 2015. 3: p. e817 [PMID:25780769] Jin J, et al. MORF-RELATED GENE702, a Reader Protein of Trimethylated Histone H3 Lysine 4 and Histone H3 Lysine 36, Is Involved in Brassinosteroid-Regulated Growth and Flowering Time Control in Rice. Plant Physiol., 2015. 168(4): p. 1275-85 [PMID:25855537] Liu X, et al. Brassinosteroid (BR) biosynthetic gene lhdd10 controls late heading and plant height in rice (Oryza sativa L.). Plant Cell Rep., 2016. 35(2): p. 357-68 [PMID:26518431] Hwang YH, et al. Functional conservation of rice OsNF-YB/YC and Arabidopsis AtNF-YB/YC proteins in the regulation of flowering time. Plant Cell Rep., 2016. 35(4): p. 857-65 [PMID:26754793] Shibaya T, et al. Hd18, Encoding Histone Acetylase Related to Arabidopsis FLOWERING LOCUS D, is Involved in the Control of Flowering Time in Rice. Plant Cell Physiol., 2016. 57(9): p. 1828-38 [PMID:27318280] Alter P, et al. Flowering Time-Regulated Genes in Maize Include the Transcription Factor ZmMADS1. Plant Physiol., 2016. 172(1): p. 389-404 [PMID:27457125]