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

Dca38229.1

Organism

Dianthus caryophyllus

Taxonomic ID

3570

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Caryophyllaceae; Caryophylleae; Dianthus

Family

MYB_related

Protein Properties

Length: 178aa MW: 20382.3 Da PI: 10.618

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Dca38229.1	genome	DCA	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	52.7	9.8e-17	77	122	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 rg +T +E+e +++++++lG++ W++Ia++++ gRt++++k+ w+++l Dca38229.1 77 RGDFTLQEEEAIIKLHQELGNK-WSKIASKFP-GRTDNEIKNVWNTHL 122 899*****************.*****.**********996 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50090	4.17	1	71	IPR017877	Myb-like domain
SuperFamily	SSF46689	2.82E-22	57	130	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	1.2E-10	58	82	IPR009057	Homeodomain-like
PROSITE profile	PS51294	24.771	72	126	IPR017930	Myb domain
SMART	SM00717	1.1E-14	76	124	IPR001005	SANT/Myb domain
Pfam	PF00249	3.1E-15	77	122	IPR001005	SANT/Myb domain
CDD	cd00167	3.79E-10	80	122	No hit	No description
Gene3D	G3DSA:1.10.10.60	2.0E-22	83	127	IPR009057	Homeodomain-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 178 aa Download sequence Send to blast
MGKGRRPCCD KAGVKKGPWR GLKRRTLSLF RLFRSTVIVI GALSLNLQVE GVYFWLARCG 60 KSCRLRWVNY LRPDLKRGDF TLQEEEAIIK LHQELGNKWS KIASKFPGRT DNEIKNVWNT 120 HLKKRLKAKE SNKDSSESCN KQSTSTSTDK SLDKNNKDNS EQNIIHQSSS TDTNEVLV

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1a5j_A	7e-18	16	126	7	108	B-MYB
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	19	24	RGLKRR

Functional Description ? help Back to Top
Source	Description
UniProt	Involved in metal ions homeostasis, including iron ions (Fe) acquisition, via the regulation of NAS4 and NAS2 genes expression. Necessary for plant survival in alkaline soil where iron availability is greatly restricted (PubMed:18088336, PubMed:24278034). Involved in the up-regulation of several biosynthesis genes of secondary metabolites involved in iron uptake under conditions of iron deficiency (PubMed:25138267). Triggers tolerance to nickel (Ni) and zinc (Zn) ions (PubMed:24278034). Required in the roots during early signaling steps of rhizobacteria-mediated (e.g. P.fluorescens WCS417r) and beneficial fungi-mediated (e.g. T.asperellum T34) broad-spectrum induced systemic resistance (ISR) against several pathogens (e.g. P.syringae pv tomato, H.parasitica, P.cucumerina, A.brassicicola and B.cinerea) and implying enhanced callose deposition (PubMed:18218967, PubMed:19121118). Required for the induction of some genes (e.g. BGLU42) upon rhizobacteria-mediated ISR (PubMed:25138267). {ECO:0000269\|PubMed:18088336, ECO:0000269\|PubMed:18218967, ECO:0000269\|PubMed:19121118, ECO:0000269\|PubMed:24278034, ECO:0000269\|PubMed:25138267}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Accumulates strongly in the root stele when exposed to iron (Fe)-deficient conditions (PubMed:24278034). Accumulates upon potassium ion (K) depletion (PubMed:15489280). Induced in roots by zinc (Zn) and cadmium (Cd) ions (PubMed:18088336). Specifically activated in the roots upon colonization by nonpathogenic P.fluorescens WCS417r (PubMed:18218967). {ECO:0000269\|PubMed:15489280, ECO:0000269\|PubMed:18088336, ECO:0000269\|PubMed:18218967, ECO:0000269\|PubMed:24278034}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_021748461.1	5e-59	transcription factor MYB13-like
Swissprot	Q9SGU3	3e-47	MYB72_ARATH; Transcription factor MYB72
TrEMBL	A0A0K9QIB3	2e-52	A0A0K9QIB3_SPIOL; Uncharacterized protein
STRING	XP_010684846.1	3e-55	(Beta vulgaris)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G16490.1	4e-48	myb domain protein 58

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Zamioudis C, et al. Rhizobacterial volatiles and photosynthesis-related signals coordinate MYB72 expression in Arabidopsis roots during onset of induced systemic resistance and iron-deficiency responses. Plant J., 2015. 84(2): p. 309-22 [PMID:26307542] Zhou C, et al. Paenibacillus polymyxa BFKC01 enhances plant iron absorption via improved root systems and activated iron acquisition mechanisms. Plant Physiol. Biochem., 2016. 105: p. 162-173 [PMID:27105423] Wang C,Yao X,Yu D,Liang G Fe-deficiency-induced expression of bHLH104 enhances Fe-deficiency tolerance of Arabidopsis thaliana. Planta, 2017. 246(3): p. 421-431 [PMID:28451750] Martínez-Medina A,Van Wees SCM,Pieterse CMJ Airborne signals from Trichoderma fungi stimulate iron uptake responses in roots resulting in priming of jasmonic acid-dependent defences in shoots of Arabidopsis thaliana and Solanum lycopersicum. Plant Cell Environ., 2017. 40(11): p. 2691-2705 [PMID:28667819] Stringlis IA, et al. MYB72-dependent coumarin exudation shapes root microbiome assembly to promote plant health. Proc. Natl. Acad. Sci. U.S.A., 2018. 115(22): p. E5213-E5222 [PMID:29686086]