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

RrC14137_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

MYB_related

Protein Properties

Length: 218aa MW: 24927 Da PI: 9.0102

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC14137_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	53.3	6.1e-17	43	88	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 rg++T++E+ +++++++G++ W++Ia++++ gRt++++k++w++++ RrC14137_p1 43 RGKMTPQEERHVLELHAKWGNR-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
SuperFamily	SSF46689	1.46E-22	23	92	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	8.0E-10	23	49	IPR009057	Homeodomain-like
PROSITE profile	PS51294	26.579	38	92	IPR017930	Myb domain
SMART	SM00717	1.3E-15	42	90	IPR001005	SANT/Myb domain
Pfam	PF00249	7.4E-16	43	87	IPR001005	SANT/Myb domain
CDD	cd00167	8.96E-12	45	88	No hit	No description
Gene3D	G3DSA:1.10.10.60	1.2E-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: 218 aa Download sequence Send to blast
MGFCSKSFRF EGGGRNMIRL GLNRTGKSCR LRWVNYLHPG LKRGKMTPQE ERHVLELHAK 60 WGNRWSKIAK KLPGRTDNEI KNYWRTHMRK QAQEKKRPMS PTSSSSNCCS SSMTTATTQD 120 TGGSNGKMNQ ECDDGNYSMD DIWREIDQSG ANIIKPVKDI YYSEQSCYLN FPPLSPTWES 180 SLESIWNMGA DESKMSSFAI DQFPLSFEHD TSAWSSLV

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1gv2_A	2e-17	24	92	37	105	MYB PROTO-ONCOGENE PROTEIN
1mse_C	2e-17	24	92	37	105	C-Myb DNA-Binding Domain
1msf_C	2e-17	24	92	37	105	C-Myb DNA-Binding Domain
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Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor. {ECO:0000305}.

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_018453269.1	1e-163	PREDICTED: transcription factor MYB59-like isoform X2
Swissprot	Q4JL84	1e-120	MYB59_ARATH; Transcription factor MYB59
TrEMBL	V4KWJ1	1e-135	V4KWJ1_EUTSA; Uncharacterized protein
STRING	Bostr.26833s0259.1.p	1e-136	(Boechera stricta)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2502	27	74

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G59780.2	1e-128	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]