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

GSBRNA2T00139651001

Common Name

GSBRNA2T00139651001

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

MYB

Protein Properties

Length: 183aa MW: 21117 Da PI: 10.8175

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00139651001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	56.5	6.2e-18	5	50	1	47
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 rg W + Ede+l+++v+q+G+++W++Ia+++ gR++k+c++rw++ GSBRNA2T00139651001 5 RGHWRPAEDEKLKELVQQFGPHNWNAIAQKLT-GRSGKSCRLRWFNQ 50 899**************************9.*********996 PP
2	Myb_DNA-binding	56.2	7.8e-18	57	100	1	46
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 r+++T+eE+e+l+ ++ +G++ W+ Iar ++ gRt++ +k++w+ GSBRNA2T00139651001 57 RNPFTEEEEERLLASHRIHGNR-WSVIARFFP-GRTDNAVKNHWHV 100 789*****************.*****.*********96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	24.136	1	55	IPR017930	Myb domain
SMART	SM00717	1.7E-14	4	53	IPR001005	SANT/Myb domain
SuperFamily	SSF46689	2.32E-30	5	98	IPR009057	Homeodomain-like
Pfam	PF00249	4.5E-17	5	50	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	2.5E-27	6	58	IPR009057	Homeodomain-like
CDD	cd00167	2.65E-13	8	49	No hit	No description
SMART	SM00717	1.3E-15	56	104	IPR001005	SANT/Myb domain
PROSITE profile	PS51294	18.713	56	106	IPR017930	Myb domain
Pfam	PF00249	1.1E-14	57	99	IPR001005	SANT/Myb domain
CDD	cd00167	2.60E-12	59	99	No hit	No description
Gene3D	G3DSA:1.10.10.60	3.9E-21	59	104	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: 183 aa Download sequence Send to blast
MMCSRGHWRP AEDEKLKELV QQFGPHNWNA IAQKLTGRSG KSCRLRWFNQ LDPRINRNPF 60 TEEEEERLLA SHRIHGNRWS VIARFFPGRT DNAVKNHWHV IMARRGRERS KMRPRSLGHD 120 GTAAGPGMMG YKDCDKKRKL ATTTAINYPY SFSHINHFQI LKEFLTGKIG FCNNTTPIND 180 GN*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1mse_C	5e-32	2	105	1	104	C-Myb DNA-Binding Domain
1msf_C	5e-32	2	105	1	104	C-Myb DNA-Binding Domain
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in stamen (PubMed:19325888). Present in roots and siliques, and, at low levels, in leaves and flowers (PubMed:21399993). Expressed in stems, especially in fibers and, at lower levels, in xylems (PubMed:18952777, PubMed:21399993). {ECO:0000269\|PubMed:18952777, ECO:0000269\|PubMed:19325888, ECO:0000269\|PubMed:21399993}.

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00139651001

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}.

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	AY519554	0.0	AY519554.1 Arabidopsis thaliana MYB transcription factor (At1g17950) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013651779.1	1e-136	transcription factor MYB52
Refseq	XP_013681197.1	1e-136	transcription factor MYB52
Swissprot	Q6R0C4	1e-123	MYB52_ARATH; Transcription factor MYB52
TrEMBL	A0A0D3DQ45	1e-129	A0A0D3DQ45_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6GAB3	1e-129	A0A3P6GAB3_BRAOL; Uncharacterized protein
STRING	Bo8g067590.1	1e-129	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2818	27	69

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G17950.1	1e-125	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] Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] Shi D, et al. MYB52 Negatively Regulates Pectin Demethylesterification in Seed Coat Mucilage. Plant Physiol., 2018. 176(4): p. 2737-2749 [PMID:29440562]