PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

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

Family

MYB

Protein Properties

Length: 222aa MW: 25212.9 Da PI: 6.511

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC6861_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	37.8	4.5e-12	1	42	7	48
HHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 7 eEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 eEd++l+ ++++G ++W++ ++ g+ R++k+c++rw +yl RrC6861_p1 1 EEDLKLISFIQKFGHENWRSLPKQSGLLRCGKSCRLRWINYL 42 9***********************99**********97 PP
2	Myb_DNA-binding	55.7	1.1e-17	48	93	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 rg++T+eE+e ++++++ +G++ W++Ia+ ++ gRt++++k+ w+++l RrC6861_p1 48 RGNFTAEEEETIIKLHQNYGNK-WSKIASQLP-GRTDNEIKNVWHTHL 93 89******************.*****.**********986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	3.3E-20	1	49	IPR009057	Homeodomain-like
SMART	SM00717	0.0011	1	44	IPR001005	SANT/Myb domain
SuperFamily	SSF46689	1.21E-25	1	89	IPR009057	Homeodomain-like
CDD	cd00167	3.27E-7	1	42	No hit	No description
PROSITE profile	PS51294	12.37	1	42	IPR017930	Myb domain
Pfam	PF00249	2.5E-10	1	42	IPR001005	SANT/Myb domain
PROSITE profile	PS51294	26.231	43	97	IPR017930	Myb domain
SMART	SM00717	3.2E-15	47	95	IPR001005	SANT/Myb domain
Pfam	PF00249	4.3E-16	48	93	IPR001005	SANT/Myb domain
CDD	cd00167	5.53E-11	50	93	No hit	No description
Gene3D	G3DSA:1.10.10.60	1.7E-28	50	98	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: 222 aa Download sequence Send to blast
EEDLKLISFI QKFGHENWRS LPKQSGLLRC GKSCRLRWIN YLRPDVKRGN FTAEEEETII 60 KLHQNYGNKW SKIASQLPGR TDNEIKNVWH THLKKRLVQS SATTPCSSDS VSCGKEDKSQ 120 AEGCLNTKTS QDSTTSVSSG GSNNLNQEAD PKIGLLFGHS EFKNIIQQVD KPHLLEIPFD 180 SDPDIWSFLD SSNSLQQSGA NEFRAEEESD FTTWFKAYSY FS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1gv2_A	7e-23	1	97	10	105	MYB PROTO-ONCOGENE PROTEIN
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional activator that binds DNA to the AC cis-elements 5'-ACCTACC-3', 5'-ACCAACC-3' and 5'-ACCTAAC-3' of promoters and specifically activates lignin biosynthetic genes during secondary wall formation mediated by SND1. {ECO:0000269\|PubMed:19122102}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Slightly induced by UV light (PubMed:9839469). Triggered by salicylic acid and jasmonic acid (PubMed:16463103). Regulated by the SND1 close homologs NST1, NST2, VND6, and VND7 and their downstream targets MYB46 and MYB83 (PubMed:19122102, PubMed:22197883). {ECO:0000269\|PubMed:16463103, ECO:0000269\|PubMed:19122102, ECO:0000269\|PubMed:22197883, ECO:0000269\|PubMed:9839469}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC232445	1e-163	AC232445.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB006F18, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018443795.1	1e-148	PREDICTED: myb-related protein Zm1-like, partial
Swissprot	Q6R0A6	1e-105	MYB63_ARATH; Transcription factor MYB63
TrEMBL	A0A0D3CVU8	1e-137	A0A0D3CVU8_BRAOL; Uncharacterized protein
STRING	Bo6g081140.1	1e-138	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4	28	2646

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G79180.1	1e-102	myb domain protein 63

Publications ? help Back to Top
Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Noda S, et al. The expression of a rice secondary wall-specific cellulose synthase gene, OsCesA7, is directly regulated by a rice transcription factor, OsMYB58/63. Planta, 2015. 242(3): p. 589-600 [PMID:26070439] Vargas L, et al. Improving total saccharification yield of Arabidopsis plants by vessel-specific complementation of caffeoyl shikimate esterase (cse) mutants. Biotechnol Biofuels, 2016. 9: p. 139 [PMID:27390589]