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_00053030-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: 104aa MW: 12005.9 Da PI: 10.6256

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PSME_00053030-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	82	3.8e-26	10	59	2	51
---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 i n s r+ tf kR+ g+lKKA+ELSvLCdaeva+iifs+tgk+ye++s PSME_00053030-RA 10 LIRNPSSRHATFYKRKSGLLKKAFELSVLCDAEVALIIFSETGKIYEFAS 59 699*********************************************86 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	2.9E-32	1	60	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	28.371	1	61	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	4.45E-29	2	85	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	5.5E-25	3	23	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	9.2E-24	11	57	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	5.5E-25	23	38	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	5.5E-25	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: 104 aa Download sequence Send to blast
MGKKKLELKL IRNPSSRHAT FYKRKSGLLK KAFELSVLCD AEVALIIFSE TGKIYEFASQ 60 NDITRILAKY KERARNATPT SLQNTEEENS KLSSKWHWIR SKTS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5f28_A	4e-21	1	72	1	71	MEF2C
5f28_B	4e-21	1	72	1	71	MEF2C
5f28_C	4e-21	1	72	1	71	MEF2C
5f28_D	4e-21	1	72	1	71	MEF2C
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Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. May be involved in the control of flowering time. {ECO:0000269\|PubMed:9339904, ECO:0000269\|Ref.9}.

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	EF087627	2e-75	EF087627.1 Picea sitchensis clone WS02731_B04 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_028959657.1	9e-27	MADS-box transcription factor 23-like isoform X4
Swissprot	Q9SAR1	9e-27	MADS8_ORYSJ; MADS-box transcription factor 8
TrEMBL	A9P1V3	8e-42	A9P1V3_PICSI; Uncharacterized protein
STRING	MLOC_56472.2	2e-26	(Hordeum vulgare)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G24260.3	6e-27	MIKC_MADS family protein

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Jang YH, et al. Survey of rice proteins interacting with OsFCA and OsFY proteins which are homologous to the Arabidopsis flowering time proteins, FCA and FY. Plant Cell Physiol., 2009. 50(8): p. 1479-92 [PMID:19561057] Cui R, et al. Functional conservation and diversification of class E floral homeotic genes in rice (Oryza sativa). Plant J., 2010. 61(5): p. 767-81 [PMID:20003164] Bai X, et al. Regulatory role of FZP in the determination of panicle branching and spikelet formation in rice. Sci Rep, 2016. 6: p. 19022 [PMID:26744119]