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

Do013351.1

Organism

Dichanthelium oligosanthes

Taxonomic ID

888268

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Dichantheliinae; Dichanthelium

Family

LBD

Protein Properties

Length: 150aa MW: 16261.4 Da PI: 6.133

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Do013351.1	genome	Dichan	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	92.9	3.8e-29	2	89	14	100
DUF260 14 kdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelallkee 100 k+Cv+ap f+++q +++fa++hk+FGasn +kl+ +lp++ +++a+ ++ yeA+ r+rdPvyG+v++i++lqqq+ +l+a+la+lk++ Do013351.1 2 KGCVFAPSFCHDQgAAHFAAIHKVFGASNASKLIMHLPDNAHSEAAVTISYEAQERLRDPVYGCVAHIFSLQQQVLTLQAQLASLKAQ 89 68*********89******************************************************************99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	15.085	1	90	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.2E-25	2	87	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 150 aa Download sequence Send to blast
MKGCVFAPSF CHDQGAAHFA AIHKVFGASN ASKLIMHLPD NAHSEAAVTI SYEAQERLRD 60 PVYGCVAHIF SLQQQVLTLQ AQLASLKAQA SQGYTKRCNV DPLEHEELFG LQRQGPEVPN 120 GGGVQNDLLC ETLEATGLEE TKPCSGVWKI

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-20	1	83	23	104	LOB family transfactor Ramosa2.1
5ly0_B	1e-20	1	83	23	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	Do013351.1

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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015648252.1	3e-51	LOB domain-containing protein CRL1-like
Swissprot	Q5UG13	7e-47	LBD_ORYSJ; LOB domain-containing protein CRL1
TrEMBL	A0A1E5VVJ7	1e-108	A0A1E5VVJ7_9POAL; LOB domain-containing protein 29
STRING	Pavir.J03376.1.p	2e-54	(Panicum virgatum)

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-35	lateral organ boundaries-domain 29

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]