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: 282aa MW: 31990.2 Da PI: 4.8873

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00688.1_g00007.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	52	1.6e-16	16	63	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 rg+W++eEd++l+ ++++G ++W++ ++ g+ R++k+c++rw +yl Rsa1.0_00688.1_g00007.1 16 RGPWSPEEDLKLISFIQKFGHENWRSLPKQSGLLRCGKSCRLRWINYL 63 89****************************99**********97 PP
2	Myb_DNA-binding	52.9	8.2e-17	69	114	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 rg++++eE+e ++++++ +G++ W++Ia+ ++ gRt++++k+ w+++l Rsa1.0_00688.1_g00007.1 69 RGNFSAEEEEMIIKLHQSYGNK-WSKIASQLP-GRTDNEIKNVWHTHL 114 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	2.2E-24	7	66	IPR009057	Homeodomain-like
PROSITE profile	PS51294	15.411	11	63	IPR017930	Myb domain
SuperFamily	SSF46689	2.73E-30	14	110	IPR009057	Homeodomain-like
SMART	SM00717	2.4E-13	15	65	IPR001005	SANT/Myb domain
Pfam	PF00249	4.7E-15	16	63	IPR001005	SANT/Myb domain
CDD	cd00167	2.21E-9	18	63	No hit	No description
PROSITE profile	PS51294	26.181	64	118	IPR017930	Myb domain
Gene3D	G3DSA:1.10.10.60	6.3E-28	67	119	IPR009057	Homeodomain-like
SMART	SM00717	1.4E-15	68	116	IPR001005	SANT/Myb domain
Pfam	PF00249	2.8E-15	69	114	IPR001005	SANT/Myb domain
CDD	cd00167	2.08E-10	71	114	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009751	Biological Process	response to salicylic acid
GO:0009753	Biological Process	response to jasmonic acid
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:2000652	Biological Process	regulation of secondary cell wall biogenesis
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 282 aa Download sequence Send to blast
MGKGRAPCCD KTKVKRGPWS PEEDLKLISF IQKFGHENWR SLPKQSGLLR CGKSCRLRWI 60 NYLRPDVKRG NFSAEEEEMI IKLHQSYGNK WSKIASQLPG RTDNEIKNVW HTHLKKRLVQ 120 SSENADEPAS PSASDCGSRG KVDKTQAEGC LNIKTSHDST SSVSSGGSNN SNQEDDPNRS 180 LMFEYSQFSD IIIQEVDKPD LLEIPFDSDI DIWSFLDDSN ANENSSASRA EEESDEDEVK 240 KWLKHLESEL GLEEDDQHHK EGEQDKDSSS SSLLNTYELM IH

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1a5j_A	1e-25	16	118	7	108	B-MYB
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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00249	DAP	Transfer from AT1G79180	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_00688.1_g00007.1

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}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK175344	1e-134	AK175344.1 Arabidopsis thaliana mRNA for putative transcription factor (MYB63), complete cds, clone: RAFL21-78-M22.
GenBank	AY519572	1e-134	AY519572.1 Arabidopsis thaliana MYB transcription factor (At1g79180) mRNA, complete cds.
GenBank	BT033125	1e-134	BT033125.1 Arabidopsis thaliana unknown protein (At1g79180) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018454512.1	0.0	PREDICTED: myb-related protein Zm1
Swissprot	Q6R0A6	1e-140	MYB63_ARATH; Transcription factor MYB63
TrEMBL	A0A3P6HFT9	1e-160	A0A3P6HFT9_BRAOL; Uncharacterized protein
STRING	Bra035097.1-P	1e-158	(Brassica rapa)

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-129	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]