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

Itr_sc000417.1_g00055.1

Organism

Ipomoea trifida

Taxonomic ID

35884

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea

Family

M-type_MADS

Protein Properties

Length: 81aa MW: 9391 Da PI: 10.2254

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Itr_sc000417.1_g00055.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	103.2	9.3e-33	9	59	1	51
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 krienk+nrqvtf+kRrng+lKKA+ELSvLCdaeva+iifs++gklye++s Itr_sc000417.1_g00055.1 9 KRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCS 59 79***********************************************96 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
CDD	cd00265	3.64E-38	2	61	No hit	No description
SuperFamily	SSF55455	1.44E-31	2	70	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	9.8E-34	3	23	IPR002100	Transcription factor, MADS-box
PROSITE pattern	PS00350	0	3	57	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	2.2E-27	10	57	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	9.8E-34	23	38	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	9.8E-34	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: 81 aa Download sequence Send to blast
MGRGRVELKR IENKINRQVT FAKRRNGLLK KAYELSVLCD AEVALIIFSN RGKLYEFCSS 60 SRTLCFKGLL DLQEESHEKK I

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5f28_A	2e-20	1	80	1	79	MEF2C
5f28_B	2e-20	1	80	1	79	MEF2C
5f28_C	2e-20	1	80	1	79	MEF2C
5f28_D	2e-20	1	80	1	79	MEF2C
6byy_A	2e-20	1	80	1	79	MEF2 CHIMERA
6byy_B	2e-20	1	80	1	79	MEF2 CHIMERA
6byy_C	2e-20	1	80	1	79	MEF2 CHIMERA
6byy_D	2e-20	1	80	1	79	MEF2 CHIMERA
6bz1_A	2e-20	1	80	1	79	MEF2 CHIMERA
6bz1_B	2e-20	1	80	1	79	MEF2 CHIMERA
6bz1_C	2e-20	1	80	1	79	MEF2 CHIMERA
6bz1_D	2e-20	1	80	1	79	MEF2 CHIMERA
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Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in flower development. {ECO:0000250\|UniProtKB:Q0HA25}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AF068722	2e-53	AF068722.1 Nicotiana sylvestris MADS-box protein MADS3 (NsMADS3) mRNA, complete cds.
GenBank	HG975444	2e-53	HG975444.1 Solanum pennellii chromosome ch05, complete genome.
GenBank	JQ686934	2e-53	JQ686934.1 Nicotiana tabacum cultivar SR1 sepallata3-like MADS-box (SEP3) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_022771827.1	2e-37	developmental protein SEPALLATA 1-like isoform X1
Swissprot	Q8LLR0	2e-37	MADS4_VITVI; Agamous-like MADS-box protein MADS4
TrEMBL	A0A438DXH4	2e-37	A0A438DXH4_VITVI; Agamous-like MADS-box protein AGL9-like
TrEMBL	A0A4D9C0S5	1e-36	A0A4D9C0S5_SALSN; MADS-box transcription factor, plant
TrEMBL	S8D4L4	2e-37	S8D4L4_9LAMI; Uncharacterized protein
STRING	Lus10011349	2e-37	(Linum usitatissimum)

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
AT1G24260.3	1e-39	MIKC_MADS family protein

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] 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]