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

PSME_00001749-RA

Organism

Pseudotsuga menziesii

Taxonomic ID

3357

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Acrogymnospermae; Pinidae; Pinales; Pinaceae; Pseudotsuga

Family

M-type_MADS

Protein Properties

Length: 83aa MW: 9387.97 Da PI: 9.923

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PSME_00001749-RA	genome	PRS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	92.2	2.6e-29	20	70	1	51
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 k+i++ + rqvtfskR+ gi+KKA+ELSvLCdaevav+ifs+tg+lyey+s PSME_00001749-RA 20 KKIDDVTSRQVTFSKRKSGIFKKANELSVLCDAEVAVLIFSNTGRLYEYAS 70 689**********************************************86 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF55455	4.32E-29	12	73	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	31.917	12	72	IPR002100	Transcription factor, MADS-box
SMART	SM00432	1.1E-39	12	71	IPR002100	Transcription factor, MADS-box
CDD	cd00265	2.06E-35	13	71	No hit	No description
PROSITE pattern	PS00350	0	14	68	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.1E-28	14	34	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	6.9E-26	21	68	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.1E-28	34	49	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.1E-28	49	70	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: 83 aa Download sequence Send to blast
MKGIQTDRDV IMGRGKIEIK KIDDVTSRQV TFSKRKSGIF KKANELSVLC DAEVAVLIFS 60 NTGRLYEYAS SRYIQRPSLI CPC

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1tqe_P	1e-19	12	71	1	60	Myocyte-specific enhancer factor 2B
1tqe_Q	1e-19	12	71	1	60	Myocyte-specific enhancer factor 2B
1tqe_R	1e-19	12	71	1	60	Myocyte-specific enhancer factor 2B
1tqe_S	1e-19	12	71	1	60	Myocyte-specific enhancer factor 2B
5f28_A	1e-19	12	71	1	60	MEF2C
5f28_B	1e-19	12	71	1	60	MEF2C
5f28_C	1e-19	12	71	1	60	MEF2C
5f28_D	1e-19	12	71	1	60	MEF2C
6c9l_A	1e-19	12	71	1	60	Myocyte-specific enhancer factor 2B
6c9l_B	1e-19	12	71	1	60	Myocyte-specific enhancer factor 2B
6c9l_C	1e-19	12	71	1	60	Myocyte-specific enhancer factor 2B
6c9l_D	1e-19	12	71	1	60	Myocyte-specific enhancer factor 2B
6c9l_E	1e-19	12	71	1	60	Myocyte-specific enhancer factor 2B
6c9l_F	1e-19	12	71	1	60	Myocyte-specific enhancer factor 2B
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Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor.

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	BT107302	1e-104	BT107302.1 Picea glauca clone GQ03105_H22 mRNA sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012086200.1	3e-29	MADS-box transcription factor 23 isoform X2
Refseq	XP_012086201.2	3e-29	MADS-box transcription factor 23 isoform X1
Swissprot	Q6VAM4	9e-29	MAD23_ORYSJ; MADS-box transcription factor 23
TrEMBL	A0A0K0M6Z4	2e-37	A0A0K0M6Z4_PINTB; DAL21 (Fragment)
STRING	OS04T0461300-01	2e-28	(Oryza sativa)
STRING	XP_010482531.1	9e-28	(Camelina sativa)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G51860.2	4e-30	MIKC_MADS family protein

Publications ? help Back to Top
Puig J, et al. Analysis of the expression of the AGL17-like clade of MADS-box transcription factors in rice. Gene Expr. Patterns, 2013 Jun-Jul. 13(5-6): p. 160-70 [PMID:23466806] Yu C, et al. The effects of fluctuations in the nutrient supply on the expression of five members of the AGL17 clade of MADS-box genes in rice. PLoS ONE, 2014. 9(8): p. e105597 [PMID:25140876] Wang H, et al. A Signaling Cascade from miR444 to RDR1 in Rice Antiviral RNA Silencing Pathway. Plant Physiol., 2016. 170(4): p. 2365-77 [PMID:26858364]