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_009120497.1

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: 217aa MW: 25005.2 Da PI: 9.2107

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009120497.1	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	52.9	8.4e-17	43	88	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 rg++T +E+ l +++++++G++ W++Ia++++ gRt++++k++w++++ XP_009120497.1 43 RGKMTHQEERLVLELHAKWGNR-WSKIAKKLP-GRTDNEIKNYWRTHM 88 89******************.*****.**********986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50090	4.6	1	37	IPR017877	Myb-like domain
Gene3D	G3DSA:1.10.10.60	1.2E-9	23	49	IPR009057	Homeodomain-like
SuperFamily	SSF46689	1.8E-22	23	92	IPR009057	Homeodomain-like
PROSITE profile	PS51294	27.323	38	92	IPR017930	Myb domain
SMART	SM00717	2.2E-16	42	90	IPR001005	SANT/Myb domain
Pfam	PF00249	9.3E-16	43	87	IPR001005	SANT/Myb domain
CDD	cd00167	2.12E-12	45	88	No hit	No description
Gene3D	G3DSA:1.10.10.60	2.7E-20	50	89	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: 217 aa Download sequence Send to blast
MGFCSQSFRF EGGGRNMIRI GLNRTGKSCR LRWVNYLHPG LKRGKMTHQE ERLVLELHAK 60 WGNRWSKIAK KLPGRTDNEI KNYWRTHMRK QAQEKKRPMS PTSSSSNCCS SSMTQDTGGS 120 NGKMNQECDD GNYSMDDIWR EIDQSGANII KPVKDIYYSE QSCYFNFPPL PLASPTWESS 180 LESTWNMDAY ESKMSSFAID QFPLSFEHAR SSWSSLV

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1gv2_A	2e-18	24	92	37	105	MYB PROTO-ONCOGENE PROTEIN
1h88_C	6e-18	24	92	91	159	MYB PROTO-ONCOGENE PROTEIN
1h89_C	6e-18	24	92	91	159	MYB PROTO-ONCOGENE PROTEIN
1h8a_C	3e-18	24	92	60	128	MYB TRANSFORMING PROTEIN
1mse_C	2e-18	24	92	37	105	C-Myb DNA-Binding Domain
1msf_C	2e-18	24	92	37	105	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_009120497.1

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	KC966740	0.0	KC966740.1 Brassica napus MYB transcription factor 59 (MYB59.1) mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009120497.1	1e-164	PREDICTED: transcription factor MYB59 isoform X2
Swissprot	Q4JL84	1e-116	MYB59_ARATH; Transcription factor MYB59
TrEMBL	A0A397XKB5	1e-156	A0A397XKB5_BRACM; Uncharacterized protein
STRING	Bra002533.1-P	1e-146	(Brassica rapa)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G59780.2	1e-126	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]