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

RrC5443_p1

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: 364aa MW: 40874.5 Da PI: 6.3194

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC5443_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	57.4	3.4e-18	14	61	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 +g+WT eEd++l+d+++++G g+W++ ++ ++R++k+c++rw +yl RrC5443_p1 14 KGPWTHEEDQKLIDYIHKHGHGSWRALPKLADLNRCGKSCRLRWTNYL 61 79********************************************97 PP
2	Myb_DNA-binding	51.7	2e-16	67	112	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 rg++++eE++ +++++ lG++ W++Ia ++ gRt++++k++w+++l RrC5443_p1 67 RGKFSAEEEKTILHLHSILGNK-WSAIATHLK-GRTDNEIKNFWNTHL 112 89******************.****9.**********996 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	4.9E-25	5	64	IPR009057	Homeodomain-like
PROSITE profile	PS51294	18.105	9	61	IPR017930	Myb domain
SuperFamily	SSF46689	3.2E-30	11	108	IPR009057	Homeodomain-like
SMART	SM00717	1.4E-14	13	63	IPR001005	SANT/Myb domain
Pfam	PF00249	5.7E-17	14	61	IPR001005	SANT/Myb domain
CDD	cd00167	2.71E-11	16	61	No hit	No description
PROSITE profile	PS51294	25.9	62	116	IPR017930	Myb domain
Gene3D	G3DSA:1.10.10.60	2.8E-26	65	117	IPR009057	Homeodomain-like
SMART	SM00717	1.9E-15	66	114	IPR001005	SANT/Myb domain
Pfam	PF00249	2.1E-15	67	112	IPR001005	SANT/Myb domain
CDD	cd00167	6.86E-11	69	112	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009733	Biological Process	response to auxin
GO:0009737	Biological Process	response to abscisic acid
GO:0009751	Biological Process	response to salicylic acid
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 364 aa Download sequence Send to blast
MGRSPCCDEN GLKKGPWTHE EDQKLIDYIH KHGHGSWRAL PKLADLNRCG KSCRLRWTNY 60 LRPDIKRGKF SAEEEKTILH LHSILGNKWS AIATHLKGRT DNEIKNFWNT HLKKKLIQMG 120 IDPVTHQPRT DLFASLPQLI ALANLKDLIE QTSQFSSIQA EAAQLAKLQY LNGMLNSSAS 180 LSNNNNNNPS SILDIDHNHA MNLLNSMVSW NKENNSNFNP ALEHEADHQN QGLFPLGFFI 240 DSTTQPLQQQ QYHLNNSPSE KPSQGDPLLD HVPFNLQTPL NSEDHFIENL VKHPIDQDHD 300 DPSSWILPSL IDNSPKSAMS SLPYNKLADA NANASSSSSY GGGDGASLYW PDFCFDESLI 360 NDIS

Sequence ? help Back to Top

Protein Sequence Length: 364 aa Download sequence Send to blast

MGRSPCCDEN GLKKGPWTHE EDQKLIDYIH KHGHGSWRAL PKLADLNRCG KSCRLRWTNY  60
LRPDIKRGKF SAEEEKTILH LHSILGNKWS AIATHLKGRT DNEIKNFWNT HLKKKLIQMG  120
IDPVTHQPRT DLFASLPQLI ALANLKDLIE QTSQFSSIQA EAAQLAKLQY LNGMLNSSAS  180
LSNNNNNNPS SILDIDHNHA MNLLNSMVSW NKENNSNFNP ALEHEADHQN QGLFPLGFFI  240
DSTTQPLQQQ QYHLNNSPSE KPSQGDPLLD HVPFNLQTPL NSEDHFIENL VKHPIDQDHD  300
DPSSWILPSL IDNSPKSAMS SLPYNKLADA NANASSSSSY GGGDGASLYW PDFCFDESLI  360
NDIS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1a5j_A	2e-28	12	116	5	108	B-MYB
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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00180	DAP	Transfer from AT1G34670	Download

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	Retrieve

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018458442.1	0.0	PREDICTED: protein ODORANT1
Swissprot	Q9S9Z2	0.0	MYB93_ARATH; Transcription factor MYB93
TrEMBL	A0A0D3CRR8	0.0	A0A0D3CRR8_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6GM25	0.0	A0A3P6GM25_BRAOL; Uncharacterized protein
STRING	Bo6g044070.1	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
AT1G34670.1	0.0	myb domain protein 93

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]