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_013626588.1

Organism

Brassica oleracea

Taxonomic ID

3712

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

Protein Properties

Length: 330aa MW: 37119.2 Da PI: 4.6644

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013626588.1	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	53.8	4.3e-17	14	61	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 +g WT eEd++l+ +++++G g W+ I+++ g++R++k+c++rw +yl XP_013626588.1 14 KGVWTIEEDKKLISYIHEHGEGGWRDIPQKAGLKRCGKSCRLRWANYL 61 799*******************************************97 PP
2	Myb_DNA-binding	44.8	2.8e-14	67	111	1	47
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 rg ++ eE+++++ +++ G++ W+ Ia++++ +Rt++++k++w++ XP_013626588.1 67 RGEFSYEEEQIIIMLHASRGNK-WSVIAKHLP-KRTDNEIKNYWNTN 111 899*****************.*****.*********986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	6.6E-24	5	64	IPR009057	Homeodomain-like
PROSITE profile	PS51294	23.777	9	65	IPR017930	Myb domain
SuperFamily	SSF46689	5.35E-29	11	108	IPR009057	Homeodomain-like
SMART	SM00717	2.6E-12	13	63	IPR001005	SANT/Myb domain
Pfam	PF00249	3.7E-16	14	61	IPR001005	SANT/Myb domain
CDD	cd00167	5.90E-10	17	61	No hit	No description
Gene3D	G3DSA:1.10.10.60	2.1E-24	65	116	IPR009057	Homeodomain-like
PROSITE profile	PS51294	18.084	66	116	IPR017930	Myb domain
SMART	SM00717	4.7E-13	66	114	IPR001005	SANT/Myb domain
Pfam	PF00249	2.1E-13	67	112	IPR001005	SANT/Myb domain
CDD	cd00167	7.55E-10	69	112	No hit	No description

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: 330 aa Download sequence Send to blast
MSRKPCCVRE GLKKGVWTIE EDKKLISYIH EHGEGGWRDI PQKAGLKRCG KSCRLRWANY 60 LKPDIKRGEF SYEEEQIIIM LHASRGNKWS VIAKHLPKRT DNEIKNYWNT NLKKRLIDQG 120 IDPLTHKPLG STPEPATPKT SDFQDDSNPS NLDEQSHSGS MSLKSLPLSS SSCNLLEISN 180 RDEVPRNYGT LNSKISSYTS ELLNKVAPRA ASMGNIISAS MEGTLIPSTT LSPPCLNDGL 240 SETSHFQMDE FDIDVNFDFN NSEHDFSQFM GEFSNNAAEE ADNIIGYDQD LLLSDVSSTN 300 VDEDGMMPNI TSWSNYLLDD SDFSYDTNQD

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1mse_C	5e-25	12	116	2	105	C-Myb DNA-Binding Domain
1msf_C	5e-25	12	116	2	105	C-Myb DNA-Binding Domain
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Primarily present around the midvein in seedlings. Accumulates gradually in expanding leaves, reaching a maximum in fully expanded leaves in the primary vein. {ECO:0000269\|PubMed:18042203}.
Uniprot	TISSUE SPECIFICITY: Expressed in both vegetative and generative organs. Mostly present in seedlings, inflorescences, roots and stems, and, to a lower extent, in leaves (in midvein and trichomes) and siliques. {ECO:0000269\|PubMed:18042203, ECO:0000269\|PubMed:23115560, ECO:0000269\|PubMed:9839469}.

Functional Description ? help Back to Top
Source	Description
UniProt	Plays a minor rheostat role in aliphatic glucosinolates (GLSs) biosynthesis, mostly short chained. Together with MYB28/HAG1 and MYB76/HAG2, promotes aliphatic glucosinolate biosynthesis but represses indolic glucosinolate biosynthesis. Prevents insect performance (e.g. lepidopteran insect Mamestra brassicae) by promoting glucosinolates. {ECO:0000269\|PubMed:17420480, ECO:0000269\|PubMed:18042203, ECO:0000269\|PubMed:18446225, ECO:0000269\|PubMed:20348214, ECO:0000269\|PubMed:23580754, ECO:0000269\|PubMed:23792303, ECO:0000269\|PubMed:23943862}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_013626588.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Slightly induced by gibberellic acid (GA), jasmonic acid (JA, MeJA), nitrogen starvation and UV LIGHT treatment. Transiently repressed by salicylic acid (SA). Accumulates upon mechanical stimuli (e.g. wounding) in inflorescence. Down-regulated by sulfur-deficient stress. {ECO:0000269\|PubMed:16463103, ECO:0000269\|PubMed:18042203, ECO:0000269\|PubMed:23792303, ECO:0000269\|PubMed:9839469}.

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	KM262767	0.0	KM262767.1 Brassica oleracea var. italica cultivar Fuqing 1 MYB29-1 transcription factor (myb29-1) mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013626588.1	0.0	PREDICTED: transcription factor MYB29-like
Swissprot	Q9FLR1	1e-155	MYB29_ARATH; Transcription factor MYB29
TrEMBL	A0A0A0RAG3	0.0	A0A0A0RAG3_BRAOT; MYB29-1 transcription factor (Fragment)
TrEMBL	A0A0D3B065	0.0	A0A0D3B065_BRAOL; Uncharacterized protein
STRING	Bo3g004500.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3787	18	60

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G07690.1	1e-154	myb domain protein 29

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] Kim K,Jiang K,Teng SL,Feldman LJ,Huang H Using biologically interrelated experiments to identify pathway genes in Arabidopsis. Bioinformatics, 2012. 28(6): p. 815-22 [PMID:22271267] Araki R, et al. Novel bioresources for studies of Brassica oleracea: identification of a kale MYB transcription factor responsible for glucosinolate production. Plant Biotechnol. J., 2013. 11(8): p. 1017-27 [PMID:23910994] Guo R, et al. Jasmonic acid and glucose synergistically modulate the accumulation of glucosinolates in Arabidopsis thaliana. J. Exp. Bot., 2013. 64(18): p. 5707-19 [PMID:24151308] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Frerigmann H,Gigolashvili T Update on the role of R2R3-MYBs in the regulation of glucosinolates upon sulfur deficiency. Front Plant Sci, 2014. 5: p. 626 [PMID:25426131] Burow M, et al. The Glucosinolate Biosynthetic Gene AOP2 Mediates Feed-back Regulation of Jasmonic Acid Signaling in Arabidopsis. Mol Plant, 2015. 8(8): p. 1201-12 [PMID:25758208] Martínez-Ballesta M, et al. The impact of the absence of aliphatic glucosinolates on water transport under salt stress in Arabidopsis thaliana. Front Plant Sci, 2015. 6: p. 524 [PMID:26236322] Bulgakov VP,Veremeichik GN,Grigorchuk VP,Rybin VG,Shkryl YN The rolB gene activates secondary metabolism in Arabidopsis calli via selective activation of genes encoding MYB and bHLH transcription factors. Plant Physiol. Biochem., 2016. 102: p. 70-9 [PMID:26913794] Mostafa I, et al. New nodes and edges in the glucosinolate molecular network revealed by proteomics and metabolomics of Arabidopsis myb28/29 and cyp79B2/B3 glucosinolate mutants. J Proteomics, 2016. 138: p. 1-19 [PMID:26915584] Smith JD,Woldemariam MG,Mescher MC,Jander G,De Moraes CM Glucosinolates from Host Plants Influence Growth of the Parasitic Plant Cuscuta gronovii and Its Susceptibility to Aphid Feeding. Plant Physiol., 2016. 172(1): p. 181-97 [PMID:27482077] Zhang X, et al. The Transcription Factor MYB29 Is a Regulator of ALTERNATIVE OXIDASE1a. Plant Physiol., 2017. 173(3): p. 1824-1843 [PMID:28167700] Mostafa I, et al. Membrane Proteomics of Arabidopsis Glucosinolate Mutants cyp79B2/B3 and myb28/29. Front Plant Sci, 2017. 8: p. 534 [PMID:28443122] Li B, et al. Network-Guided Discovery of Extensive Epistasis between Transcription Factors Involved in Aliphatic Glucosinolate Biosynthesis. Plant Cell, 2018. 30(1): p. 178-195 [PMID:29317470]