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

Gh_Sca004768G07

Organism

Gossypium hirsutum

Taxonomic ID

3635

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

MIKC_MADS

Protein Properties

Length: 304aa MW: 34728.9 Da PI: 9.6374

Description

MIKC_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_Sca004768G07	genome	NAU-NBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	84.4	7.1e-27	10	59	2	51
---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 ri+n++ rqvtfskRrng+lKKA+EL +LCdaev v+ifsstgkly+++s Gh_Sca004768G07 10 RIDNSTSRQVTFSKRRNGLLKKAKELAILCDAEVGVMIFSSTGKLYDFAS 59 8***********************************************86 PP
2	K-box	84.9	1.7e-28	76	171	4	99
K-box 4 ssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkk 97 +++ ++ +++ + +q+e+a L++++++Lq+++R+++Ge+L+ L++k+Lq+Le+qLe sl+ +R kK+++l+++i+el +k + +++en +L kk Gh_Sca004768G07 76 HQQPENPTSEVKFWQREAAVLRQQLQSLQENHRQMMGEELSGLTVKDLQNLESQLEMSLRGVRMKKDQMLMDEIQELTRKGNLIHQENVELYKK 169 5566688999***********************************************************************************9 PP K-box 98 le 99 ++ Gh_Sca004768G07 170 VN 171 86 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	1.4E-39	1	60	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	31.511	1	61	IPR002100	Transcription factor, MADS-box
CDD	cd00265	1.24E-45	2	78	No hit	No description
SuperFamily	SSF55455	7.98E-32	2	90	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.7E-27	3	23	IPR002100	Transcription factor, MADS-box
PROSITE pattern	PS00350	0	3	57	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	1.1E-24	10	57	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.7E-27	23	38	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.7E-27	38	59	IPR002100	Transcription factor, MADS-box
Pfam	PF01486	2.4E-27	83	170	IPR002487	Transcription factor, K-box
PROSITE profile	PS51297	16.136	86	176	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:0010440	Biological Process	stomatal lineage progression
GO:0048574	Biological Process	long-day photoperiodism, flowering
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0008134	Molecular Function	transcription factor binding
GO:0042803	Molecular Function	protein homodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 304 aa Download sequence Send to blast
MGRGKIVIRR IDNSTSRQVT FSKRRNGLLK KAKELAILCD AEVGVMIFSS TGKLYDFAST 60 SMKSVIERYN KTKEEHQQPE NPTSEVKFWQ REAAVLRQQL QSLQENHRQM MGEELSGLTV 120 KDLQNLESQL EMSLRGVRMK KDQMLMDEIQ ELTRKGNLIH QENVELYKKV NQIRQENTEL 180 YKKVYGTRDV NGANKELVVT NGPSIGEDIH VPVHLQLSQP QQQNYETPTR ATKLGSPSIA 240 KQILKDHNAI FASCDIPMAA INGTFGGLDF VWRSNNPKLH KLRKLVICEI MINNGLNACY 300 ELCR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5f28_A	5e-21	1	82	1	82	MEF2C
5f28_B	5e-21	1	82	1	82	MEF2C
5f28_C	5e-21	1	82	1	82	MEF2C
5f28_D	5e-21	1	82	1	82	MEF2C
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Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed at high levels in leaves, moderate levels in roots, seedlings and stems, and at low levels in flowers, pollen and siliques. Accumulates in leaf guard cells and trichomes. Also present in epidermal cells of roots (PubMed:11115127, PubMed:12837945, PubMed:12949148). Expressed in mature guard cells (PubMed:17704216). {ECO:0000269\|PubMed:11115127, ECO:0000269\|PubMed:12837945, ECO:0000269\|PubMed:12949148, ECO:0000269\|PubMed:17704216}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in the regulation of flowering time in long-day photoperiod. Participates in the repression of FT expression and floral transition, by interacting closely with the FLC-SVP pathways (PubMed:24876250). Functions in the satellite meristemoid lineage of stomatal development (PubMed:17704216). {ECO:0000269\|PubMed:17704216, ECO:0000269\|PubMed:24876250}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00410	DAP	Transfer from AT3G57230	Download

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Repressed by the micro RNA miR824. {ECO:0000269\|PubMed:18579782}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	KC155659	1e-177	KC155659.1 Gossypium hirsutum MADS box protein MADS64 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016748925.1	1e-172	PREDICTED: MADS-box transcription factor 23-like isoform X3
Swissprot	A2RVQ5	1e-109	AGL16_ARATH; Agamous-like MADS-box protein AGL16
TrEMBL	A0A1U8PCR6	1e-171	A0A1U8PCR6_GOSHI; MADS-box transcription factor 23-like isoform X3
STRING	XP_010254615.1	1e-144	(Nelumbo nucifera)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM530	24	105

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G57230.1	1e-111	AGAMOUS-like 16

Publications ? help Back to Top
Yang K,Jiang M,Le J A new loss-of-function allele 28y reveals a role of ARGONAUTE1 in limiting asymmetric division of stomatal lineage ground cell. J Integr Plant Biol, 2014. 56(6): p. 539-49 [PMID:24386951]