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

XP_009126665.1

Organism

Brassica rapa

Taxonomic ID

3711

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_related

Protein Properties

Length: 215aa MW: 24583.6 Da PI: 9.1304

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009126665.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	58.7	1.3e-18	42	87	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 rg++T+eE+ l +++++++G++ W++Iar+++ gRt++++k++w++++ XP_009126665.1 42 RGKMTPEEERLVLELHAKWGNR-WSKIARKLP-GRTDNEIKNYWRTHM 87 89******************.*****.**********986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50090	4.646	1	36	IPR017877	Myb-like domain
SuperFamily	SSF46689	1.88E-23	22	91	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	3.5E-10	22	48	IPR009057	Homeodomain-like
PROSITE profile	PS51294	27.675	37	91	IPR017930	Myb domain
SMART	SM00717	6.5E-18	41	89	IPR001005	SANT/Myb domain
Pfam	PF00249	6.2E-17	42	86	IPR001005	SANT/Myb domain
CDD	cd00167	1.11E-13	44	87	No hit	No description
Gene3D	G3DSA:1.10.10.60	1.8E-21	49	88	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: 215 aa Download sequence Send to blast
MGFCSESFRF EGGGRNIGIG LNRTGKSCRL RWVNYLHPGL KRGKMTPEEE RLVLELHAKW 60 GNRWSKIARK LPGRTDNEIK NYWRTHMRKI AQEKKRPMSP TSSSSNFCSS SMTTATTQDT 120 GGSKGKMNHD GYYSMDDIWR EIDQSGESIT KPVKDIYYSE QSCYLNFPPL ASPAWESSLE 180 SIWNMDADES KISSFAIDQF PLTFEHGRSS WSSLV

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1gv2_A	2e-18	23	89	37	103	MYB PROTO-ONCOGENE PROTEIN
1h88_C	8e-18	23	89	91	157	MYB PROTO-ONCOGENE PROTEIN
1h89_C	8e-18	23	89	91	157	MYB PROTO-ONCOGENE PROTEIN
1h8a_C	4e-18	23	89	60	126	MYB TRANSFORMING PROTEIN
1mse_C	2e-18	23	89	37	103	C-Myb DNA-Binding Domain
1msf_C	2e-18	23	89	37	103	C-Myb DNA-Binding Domain
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Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Mainly expressed in leaves and seedlings, and to a lower extent, in roots, stems and inflorescences. Isoform MYB59-1 and isoform MYB59-2 are present in roots, leaves, and seedlings, while the expression of isoform MYB59-3 and isoform MYB59-4 is confined to seedlings. {ECO:0000269\|PubMed:16531467}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor. {ECO:0000305}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009126665.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Isoform MYB59-1 is induced by jasmonate (JA), salicylic acid (SA), gibberellic acid (GA), and ethylene. Also induced by cadmium (Cd). {ECO:0000269\|PubMed:16463103, ECO:0000269\|PubMed:16531467}.

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	DQ075253	0.0	DQ075253.1 Arabidopsis thaliana MYB transcription factor MYB59-2 (At5g59780) mRNA, complete cds, alternatively spliced.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009126665.1	1e-161	PREDICTED: transcription factor MYB59-like isoform X3
Swissprot	Q4JL84	1e-116	MYB59_ARATH; Transcription factor MYB59
TrEMBL	A0A078JWX0	1e-143	A0A078JWX0_BRANA; BnaAnng32620D protein
TrEMBL	A0A398A807	1e-143	A0A398A807_BRACM; Uncharacterized protein
TrEMBL	M4DUU6	1e-143	M4DUU6_BRARP; Uncharacterized protein
STRING	Bra020289.1-P	1e-144	(Brassica rapa)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G59780.2	1e-117	myb domain protein 59

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] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Nishida S,Kakei Y,Shimada Y,Fujiwara T Genome-wide analysis of specific alterations in transcript structure and accumulation caused by nutrient deficiencies in Arabidopsis thaliana. Plant J., 2017. 91(4): p. 741-753 [PMID:28586097] Hickman R, et al. Architecture and Dynamics of the Jasmonic Acid Gene Regulatory Network. Plant Cell, 2017. 29(9): p. 2086-2105 [PMID:28827376]