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

RrC2938_p2

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

Protein Properties

Length: 270aa MW: 30863.9 Da PI: 8.5425

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC2938_p2	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	52	1.6e-16	14	61	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 +g+WT+eEd +l+ ++k +G g+W++ ++ g+ R++k+c++rw +yl RrC2938_p2 14 KGAWTKEEDHKLISYIKSHGEGCWRSLPASAGLLRCGKSCRLRWINYL 61 79****************************99**********97 PP
2	Myb_DNA-binding	56.9	4.8e-18	67	111	1	47
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 rg++T eEd+l+++++ +lG++ W++Ia +++ gRt++++k++w+++ RrC2938_p2 67 RGNFTLEEDDLIIKLHSLLGNK-WSLIATRLP-GRTDNEIKNYWNTH 111 89******************.*****.**********97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	1.6E-23	5	64	IPR009057	Homeodomain-like
PROSITE profile	PS51294	16.064	9	61	IPR017930	Myb domain
SMART	SM00717	7.6E-12	13	63	IPR001005	SANT/Myb domain
SuperFamily	SSF46689	4.87E-29	13	108	IPR009057	Homeodomain-like
Pfam	PF00249	2.7E-15	14	61	IPR001005	SANT/Myb domain
CDD	cd00167	9.92E-9	16	61	No hit	No description
PROSITE profile	PS51294	28.266	62	116	IPR017930	Myb domain
Gene3D	G3DSA:1.10.10.60	9.5E-28	65	117	IPR009057	Homeodomain-like
SMART	SM00717	2.3E-17	66	114	IPR001005	SANT/Myb domain
Pfam	PF00249	1.4E-16	67	111	IPR001005	SANT/Myb domain
CDD	cd00167	2.16E-11	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: 270 aa Download sequence Send to blast
MGRSPCCEKD HTNKGAWTKE EDHKLISYIK SHGEGCWRSL PASAGLLRCG KSCRLRWINY 60 LRPDLKRGNF TLEEDDLIIK LHSLLGNKWS LIATRLPGRT DNEIKNYWNT HVKRKLIRGG 120 IDPATHRPIK ARRDSPEFRE TEDSLVKVLS FGHQLEKEEG FGEERRYQKG LTCKNESLDL 180 NLELRISPPC QNQQHRDETK LRFGKEKYRC GACRFGLRNA KECSCGDVKC QIEDSSSSSY 240 SSSDISSSIV GYDFLGLNTS VVDFTSLEMN

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1a5j_A	5e-29	14	116	7	108	B-MYB
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Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By light, UV, cold, drought, ethylene, jasmonic acid (JA), salicylic acid (SA), abscisic acid (ABA), cadmium (CdCl(2)), high salt (NaCl), and cytokinins. {ECO:0000269\|PubMed:16463103, 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	KF738281	0.0	KF738281.1 Brassica napus MYB transcription factor 32-1 (MYB32-1.1) mRNA, complete cds.
GenBank	KF738282	0.0	KF738282.1 Brassica napus MYB transcription factor 32-2 (MYB32-2.1) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018478473.1	0.0	PREDICTED: transcription factor MYB32-like
Swissprot	O49608	1e-135	MYB32_ARATH; Transcription factor MYB32
TrEMBL	A0A397KY56	1e-157	A0A397KY56_BRACM; Uncharacterized protein
STRING	Bra017685.1-P	1e-157	(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
AT4G34990.1	1e-136	myb domain protein 32

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] Zhou M, et al. Changing a conserved amino acid in R2R3-MYB transcription repressors results in cytoplasmic accumulation and abolishes their repressive activity in Arabidopsis. Plant J., 2015. 84(2): p. 395-403 [PMID:26332741] Lotkowska ME, et al. The Arabidopsis Transcription Factor MYB112 Promotes Anthocyanin Formation during Salinity and under High Light Stress. Plant Physiol., 2015. 169(3): p. 1862-80 [PMID:26378103] Zhou M, et al. LNK1 and LNK2 Corepressors Interact with the MYB3 Transcription Factor in Phenylpropanoid Biosynthesis. Plant Physiol., 2017. 174(3): p. 1348-1358 [PMID:28483877] Mondal SK,Roy S Genome-wide sequential, evolutionary, organizational and expression analyses of phenylpropanoid biosynthesis associated MYB domain transcription factors in Arabidopsis. J. Biomol. Struct. Dyn., 2018. 36(6): p. 1577-1601 [PMID:28490275]