PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

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: 288aa MW: 33512.4 Da PI: 9.7401

Description

MIKC_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.012G180300.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	99.5	1.4e-31	9	59	1	51
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 krienk+nrqvtf+kRrng+lKKA+ELSvLCdaeva+iifs++gklye++s Gorai.012G180300.1 9 KRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCS 59 79***********************************************96 PP
2	K-box	90.3	3.6e-30	91	175	15	99
K-box 15 eslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 s++qe+ kLk++++ Lqr+qR+llGedL++Ls keL++Le+qL++slk iRs++++++l+q+++lq+ke+ l+e+nk+L+++l Gorai.012G180300.1 91 LSSRQEYLKLKARYDALQRSQRNLLGEDLGPLSSKELESLEKQLDSSLKLIRSTRTQYMLDQLNDLQRKEHLLNEANKTLKQRLV 175 5789*****************************************************************************9875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	1.3E-41	1	60	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	33.515	1	61	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	1.44E-33	2	75	IPR002100	Transcription factor, MADS-box
CDD	cd00265	4.22E-43	2	76	No hit	No description
PRINTS	PR00404	1.3E-32	3	23	IPR002100	Transcription factor, MADS-box
PROSITE pattern	PS00350	0	3	57	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	2.9E-26	10	57	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.3E-32	23	38	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.3E-32	38	59	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS51297	14.883	90	180	IPR002487	Transcription factor, K-box
Pfam	PF01486	4.1E-25	93	174	IPR002487	Transcription factor, K-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0001708	Biological Process	cell fate specification
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0010093	Biological Process	specification of floral organ identity
GO:0048481	Biological Process	plant ovule development
GO:0048833	Biological Process	specification of floral organ number
GO:0005634	Cellular Component	nucleus
GO:0016021	Cellular Component	integral component of membrane
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: 288 aa Download sequence Send to blast
MGRGRVELKR IENKINRQVT FAKRRNGLLK KAYELSVLCD AEVALIIFSN RGKLYEFCSS 60 SSMIKTLERY QKCNYGAPEP NVSSREAALE LSSRQEYLKL KARYDALQRS QRNLLGEDLG 120 PLSSKELESL EKQLDSSLKL IRSTRTQYML DQLNDLQRKE HLLNEANKTL KQRLVEGYQV 180 NSLQLNPNAT EDVGYGRQQV HHQPHGDAFF HPLDCEPTLQ IGYVNFDSVS KNRMLDRIEF 240 VRFIGFYIIN IHFLNGLNLF TFPYFKSIFW FESIIRFMNK SKSVNFF*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ox0_A	9e-50	75	177	1	104	Developmental protein SEPALLATA 3
4ox0_B	9e-50	75	177	1	104	Developmental protein SEPALLATA 3
4ox0_C	9e-50	75	177	1	104	Developmental protein SEPALLATA 3
4ox0_D	9e-50	75	177	1	104	Developmental protein SEPALLATA 3
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Gra.1416	0.0	flower\| flowering

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in flowers and seeds. {ECO:0000269\|Ref.1}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in flower development. {ECO:0000250\|UniProtKB:Q0HA25}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00605	ChIP-seq	Transfer from AT1G24260	Download

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	AF538965	0.0	AF538965.1 Gossypium hirsutum MADS box protein GHMADS-1 (MADS-1) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012460219.1	1e-163	PREDICTED: agamous-like MADS-box protein AGL9 homolog
Refseq	XP_016694865.1	1e-163	PREDICTED: agamous-like MADS-box protein AGL9 homolog
Refseq	XP_016721096.1	1e-163	PREDICTED: agamous-like MADS-box protein AGL9 homolog
Refseq	XP_017612638.1	1e-163	PREDICTED: agamous-like MADS-box protein AGL9 homolog
Swissprot	Q8LLR0	1e-140	MADS4_VITVI; Agamous-like MADS-box protein MADS4
TrEMBL	A0A0D2W0J7	0.0	A0A0D2W0J7_GOSRA; Uncharacterized protein
STRING	Gorai.012G180300.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM6220	26	44

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G24260.1	1e-126	MIKC_MADS family protein

Link Out ? help Back to Top
Phytozome	Gorai.012G180300.1

Publications ? help Back to Top
Jaillon O, et al. The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla. Nature, 2007. 449(7161): p. 463-7 [PMID:17721507] Díaz-Riquelme J,Lijavetzky D,Martínez-Zapater JM,Carmona MJ Genome-wide analysis of MIKCC-type MADS box genes in grapevine. Plant Physiol., 2009. 149(1): p. 354-69 [PMID:18997115] Paterson AH, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature, 2012. 492(7429): p. 423-7 [PMID:23257886] Grimplet J,Martínez-Zapater JM,Carmona MJ Structural and functional annotation of the MADS-box transcription factor family in grapevine. BMC Genomics, 2016. 17: p. 80 [PMID:26818751]