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_009131558.1

Organism

Brassica rapa

Taxonomic ID

3711

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: 335aa MW: 38054.4 Da PI: 5.8224

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009131558.1	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	58.7	1.3e-18	14	61	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 +g+WT++Ede+l+d ++++G g+W++ ++ g++R++k+c++rw +yl XP_009131558.1 14 KGPWTQDEDEKLIDHIQKHGHGSWRALPKQAGLNRCGKSCRLRWTNYL 61 79********************************************97 PP
2	Myb_DNA-binding	58.4	1.6e-18	67	112	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 rg++T+eE+e +++++ +lG++ W++Ia+ ++ gRt++++k++w+++l XP_009131558.1 67 RGNFTEEEEETIINLHSLLGNK-WSSIASNLP-GRTDNEIKNYWNTHL 112 89******************.*****.**********996 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	9.1E-27	5	64	IPR009057	Homeodomain-like
PROSITE profile	PS51294	18.023	9	61	IPR017930	Myb domain
SuperFamily	SSF46689	6.97E-32	11	108	IPR009057	Homeodomain-like
SMART	SM00717	2.6E-15	13	63	IPR001005	SANT/Myb domain
Pfam	PF00249	6.4E-17	14	61	IPR001005	SANT/Myb domain
CDD	cd00167	6.23E-12	16	61	No hit	No description
PROSITE profile	PS51294	28.205	62	116	IPR017930	Myb domain
Gene3D	G3DSA:1.10.10.60	9.7E-28	65	116	IPR009057	Homeodomain-like
SMART	SM00717	1.2E-17	66	114	IPR001005	SANT/Myb domain
Pfam	PF00249	5.3E-17	67	112	IPR001005	SANT/Myb domain

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: 335 aa Download sequence Send to blast
MGRSPCCDEN GLKKGPWTQD EDEKLIDHIQ KHGHGSWRAL PKQAGLNRCG KSCRLRWTNY 60 LRPDIKRGNF TEEEEETIIN LHSLLGNKWS SIASNLPGRT DNEIKNYWNT HLRKKLLQMG 120 IDPVTHRPRT DHLNVLAALP QLIAAANFNN LLNLNQNVQL DAATLAKAQL LHNMIQVLST 180 NNNNIPSSSP LTMQTNNNLF GQSSYLENQS LFGQPQNFSH IPGANHDEKM MVENQMIDQP 240 LDSFSSLMQM DVQDDHNSLP LLVAASPEES NQSQMMIKNK DIVHRHDTSN PSSSNSSFTQ 300 DHHQPWCDTI DDEAGDSYWK EIMEQTCSEP WPFPE

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1h8a_C	5e-31	12	116	25	128	MYB TRANSFORMING PROTEIN
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Specifically and transiently expressed in root endodermal cells overlying the early stages of lateral root primordia formation. {ECO:0000269\|PubMed:24902892, ECO:0000269\|PubMed:25482809}.

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	XP_009131558.1

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_009131558.1	0.0	PREDICTED: transcription repressor MYB6-like isoform X1
Refseq	XP_009131559.1	0.0	PREDICTED: transcription repressor MYB6-like isoform X1
Refseq	XP_009131560.1	0.0	PREDICTED: transcription repressor MYB6-like isoform X1
Refseq	XP_013729074.1	0.0	transcription factor MYB41-like
Swissprot	Q9S9Z2	3e-88	MYB93_ARATH; Transcription factor MYB93
TrEMBL	M4CQ81	0.0	M4CQ81_BRARP; Uncharacterized protein
STRING	Bra006370.1-P	0.0	(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
AT5G16770.2	1e-173	myb domain protein 9

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]