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

Brast02G042800.1.p

Organism

Brachypodium stacei

Taxonomic ID

1071399

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Brachypodieae; Brachypodium

Family

LBD

Protein Properties

Length: 251aa MW: 25725.5 Da PI: 6.2657

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Brast02G042800.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	124.6	5e-39	9	108	1	99
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 +C aCk+lrrkCa++Cv+apyf++eq +++fa++hk+FGasnv+kll++lp +r +a+ ++ yeA+ar+rdPvyG+v++i++lqqq+++l Brast02G042800.1.p 9 PCGACKFLRRKCARGCVFAPYFCHEQgAAHFAAIHKVFGASNVSKLLAHLPLADRAEAAVTVSYEAQARLRDPVYGCVAHIFALQQQVMTL 99 7***********************89*********************************************************** PP DUF260 91 kaelallke 99 +a+la+ k+ Brast02G042800.1.p 100 QAQLASFKH 108 **99877 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	22.092	8	110	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.9E-37	9	107	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 251 aa Download sequence Send to blast
MSMTGFGSPC GACKFLRRKC ARGCVFAPYF CHEQGAAHFA AIHKVFGASN VSKLLAHLPL 60 ADRAEAAVTV SYEAQARLRD PVYGCVAHIF ALQQQVMTLQ AQLASFKHAA HAQHQQAASA 120 SMAPHEDASC YSYPPAWCNG AADVAAAAGG GFFAGGGNGV YGGGNGVAGA GHDDAVAMSS 180 ISAMLLAGSA AASDYYYAAL EQDDGHVVAA AESSAFGAEE SGGWRSSSST SGYQDCEDLQ 240 SVAYAYLNRS *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-35	2	103	4	104	LOB family transfactor Ramosa2.1
5ly0_B	2e-35	2	103	4	104	LOB family transfactor Ramosa2.1
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Acts as positive regulator of adventitious (crown) root formation by promoting its initiation (PubMed:15829602, PubMed:15960615). Acts as positive regulator of lateral root formation. Regulated by the auxin response factor and transcriptional activator ARF23/ARF1 (PubMed:15829602). Involved in auxin-mediated cell dedifferentiation, and may promote the initial cell division in the pericycle cells adjacent to the peripheral vascular cylinder at the base of the stem (PubMed:15960615). May act upstream of the gene regulatory network controlling adventitious root (crown) development (PubMed:21806801). {ECO:0000269\|PubMed:15829602, ECO:0000269\|PubMed:15960615, ECO:0000269\|PubMed:21806801}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Brast02G042800.1.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced by auxin (PubMed:15829602, PubMed:15960615). Induced by ethylene (PubMed:15960615). {ECO:0000269\|PubMed:15829602, ECO:0000269\|PubMed:15960615}.

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	EF051732	1e-113	EF051732.1 Zea mays rootless concerning crown and seminal lateral roots (rtcs) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_003562079.1	1e-111	LOB domain-containing protein 20
Swissprot	Q5UG13	9e-90	LBD_ORYSJ; LOB domain-containing protein CRL1
TrEMBL	I1H9P9	1e-110	I1H9P9_BRADI; Uncharacterized protein
STRING	BRADI1G75110.1	1e-110	(Brachypodium distachyon)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP2501	38	93

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G58190.1	2e-58	lateral organ boundaries-domain 29

Link Out ? help Back to Top
Phytozome	Brast02G042800.1.p

Publications ? help Back to Top
Coudert Y,Périn C,Courtois B,Khong NG,Gantet P Genetic control of root development in rice, the model cereal. Trends Plant Sci., 2010. 15(4): p. 219-26 [PMID:20153971] Kitomi Y, et al. The auxin responsive AP2/ERF transcription factor CROWN ROOTLESS5 is involved in crown root initiation in rice through the induction of OsRR1, a type-A response regulator of cytokinin signaling. Plant J., 2011. 67(3): p. 472-84 [PMID:21481033] Coudert Y, et al. Transcript profiling of crown rootless1 mutant stem base reveals new elements associated with crown root development in rice. BMC Genomics, 2011. 12: p. 387 [PMID:21806801]