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

Rsa1.0_00078.1_g00003.1

Organism

Raphanus sativus

Taxonomic ID

3726

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: 312aa MW: 35571.7 Da PI: 6.9583

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00078.1_g00003.1	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	59.1	9.9e-19	14	61	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 +g+WT+eEd++l++ ++++G g+W++ ++ g++R++k+c++rw +yl Rsa1.0_00078.1_g00003.1 14 KGPWTPEEDQKLINHIQKHGHGSWRALPKQAGLNRCGKSCRLRWTNYL 61 79********************************************97 PP
2	Myb_DNA-binding	57.4	3.3e-18	67	111	1	47
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 rg++T+eE++ +++++ +lG++ W++Ia +++ gRt++++k++w+++ Rsa1.0_00078.1_g00003.1 67 RGNFTAEEEQTIINLHSLLGNK-WSSIAGHLP-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	1.1E-27	5	64	IPR009057	Homeodomain-like
PROSITE profile	PS51294	18.484	9	61	IPR017930	Myb domain
SuperFamily	SSF46689	6.6E-33	11	108	IPR009057	Homeodomain-like
SMART	SM00717	8.5E-16	13	63	IPR001005	SANT/Myb domain
Pfam	PF00249	1.1E-17	14	61	IPR001005	SANT/Myb domain
CDD	cd00167	2.72E-12	16	61	No hit	No description
PROSITE profile	PS51294	27.394	62	116	IPR017930	Myb domain
Gene3D	G3DSA:1.10.10.60	7.3E-28	65	117	IPR009057	Homeodomain-like
SMART	SM00717	2.2E-16	66	114	IPR001005	SANT/Myb domain
Pfam	PF00249	1.9E-16	67	111	IPR001005	SANT/Myb domain
CDD	cd00167	7.66E-12	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: 312 aa Download sequence Send to blast
MGRSPCCDEN GLKKGPWTPE EDQKLINHIQ KHGHGSWRAL PKQAGLNRCG KSCRLRWTNY 60 LRPDIKRGNF TAEEEQTIIN LHSLLGNKWS SIAGHLPGRT DNEIKNYWNT HIRKKLIQMG 120 IDPVTHRPRT DHLNVLAALP QLLAAANFNN LLTLNQNIQP DATSIAKAQW LHSMMQVLNN 180 NNNNNTSSSS IDIHNTNNYI FGQSSFIENQ PNISENFYDP TQSLSHIDHQ PMDSFSSPFR 240 VFSHQDIVPP LISASPDESK QTQMMIKNKE ILKHNEHTSN PSSTPTFAQD HQPWCDIIDD 300 EATDSYWKDI IE

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1h8a_C	2e-30	12	116	25	128	MYB TRANSFORMING PROTEIN
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that acts as negative regulator of lateral root (LR) development. Required for normal auxin responses during LR development. May be part of a negative feedback loop stimulated specifically in the endodermis upon LR initiation to ensure that LRs are formed only in the correct place. {ECO:0000269\|PubMed:24902892}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_00078.1_g00003.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced by abscisic acid (ABA), auxin and gravity in roots. {ECO:0000269\|PubMed:24902892}.

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018489188.1	0.0	PREDICTED: myb-related protein 330
Swissprot	Q9S9Z2	2e-94	MYB93_ARATH; Transcription factor MYB93
TrEMBL	A0A3P6FIN9	0.0	A0A3P6FIN9_BRAOL; Uncharacterized protein
STRING	Bo5g150350.1	0.0	(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
AT3G02940.1	1e-167	myb domain protein 107

Publications ? help Back to Top
Gibbs DJ,Coates JC AtMYB93 is an endodermis-specific transcriptional regulator of lateral root development in arabidopsis. Plant Signal Behav, 2014. 9(10): p. e970406 [PMID:25482809]