PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Previous version: v3.0 v4.0

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Itr_sc000602.1_g00002.1

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

MYB

Protein Properties

Length: 277aa MW: 31551.3 Da PI: 9.9763

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Itr_sc000602.1_g00002.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	58	2.2e-18	4	49	1	47
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 rg W + Ede+l ++v+++G+++W++Ia++++ gR++k+c++rw++ Itr_sc000602.1_g00002.1 4 RGHWRPHEDEKLRELVEKYGPHNWNAIAEKLQ-GRSGKSCRLRWFNQ 49 899***************************.*********996 PP
2	Myb_DNA-binding	54.2	3.3e-17	56	99	1	46
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 r ++T+eE+e+l+ ++ +G++ W+ Iar ++ gRt++ +k++w+ Itr_sc000602.1_g00002.1 56 RSPFTEEEEERLLASHRIHGNR-WAIIARLFP-GRTDNAVKNHWHV 99 789*****************.*****.*********96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	19.958	1	50	IPR017930	Myb domain
SMART	SM00717	6.2E-16	3	52	IPR001005	SANT/Myb domain
SuperFamily	SSF46689	9.73E-30	4	97	IPR009057	Homeodomain-like
Pfam	PF00249	1.4E-17	4	49	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	1.4E-27	5	57	IPR009057	Homeodomain-like
CDD	cd00167	7.42E-15	7	48	No hit	No description
PROSITE profile	PS51294	26.207	51	105	IPR017930	Myb domain
SMART	SM00717	3.6E-15	55	103	IPR001005	SANT/Myb domain
Pfam	PF00249	5.4E-14	56	98	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	8.3E-21	58	104	IPR009057	Homeodomain-like
CDD	cd00167	7.80E-12	58	98	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009737	Biological Process	response to abscisic acid
GO:2000652	Biological Process	regulation of secondary cell wall biogenesis
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 277 aa Download sequence Send to blast
MCSRGHWRPH EDEKLRELVE KYGPHNWNAI AEKLQGRSGK SCRLRWFNQL DPRINRSPFT 60 EEEEERLLAS HRIHGNRWAI IARLFPGRTD NAVKNHWHVI MARKCRERSK MYAKKAVLKS 120 LNDHAAASSS RQPQHGGGAT EFSRAFNGGN LPFFDKLHYP LPYAPSLYPL EFQGDNFVQP 180 VTMDLDNRKK PVEFYDFLQV NTDSNKSEVI DQYARRDDEE VEQQAAAAAG NRSKPAGGGG 240 DVQFIDFFSA GAGRFSGNTS SSLLPCRRHL RSGRKTP

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1a5j_A	9e-34	4	105	7	108	B-MYB
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Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that confers sensitivity to abscisic acid (ABA) and salt, but tolerance to drought (PubMed:21399993). Regulates secondary cell wall (SCW) biosynthesis, especially in interfascicular and xylary fibers (PubMed:18952777, PubMed:23781226). {ECO:0000269\|PubMed:18952777, ECO:0000269\|PubMed:21399993, ECO:0000269\|PubMed:23781226}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00145	DAP	Transfer from AT1G17950	Download

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By abscisic acid (PubMed:16463103, PubMed:21399993). Accumulates in response to salt (PubMed:21399993). Triggered by MYB46 and MYB83 in the regulation of secondary cell wall biosynthesis (PubMed:19674407, PubMed:22197883). {ECO:0000269\|PubMed:16463103, ECO:0000269\|PubMed:19674407, ECO:0000269\|PubMed:21399993, ECO:0000269\|PubMed:22197883}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019167339.1	1e-167	PREDICTED: transcriptional activator Myb-like
Swissprot	Q6R0C4	3e-81	MYB52_ARATH; Transcription factor MYB52
TrEMBL	A0A1S3Y103	1e-104	A0A1S3Y103_TOBAC; myb-related protein A-like
STRING	XP_006478100.1	1e-105	(Citrus sinensis)
STRING	XP_006441364.1	1e-105	(Citrus clementina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA1784	24	66

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G17950.1	4e-82	myb domain protein 52

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] Cassan-Wang H, et al. Identification of novel transcription factors regulating secondary cell wall formation in Arabidopsis. Front Plant Sci, 2013. 4: p. 189 [PMID:23781226] Shi D, et al. MYB52 Negatively Regulates Pectin Demethylesterification in Seed Coat Mucilage. Plant Physiol., 2018. 176(4): p. 2737-2749 [PMID:29440562]