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

462941160

Organism

Eragrostis tef

Taxonomic ID

110835

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Chloridoideae; Eragrostideae; Eragrostidinae; Eragrostis

Family

LBD

Protein Properties

Length: 116aa MW: 12145 Da PI: 8.4926

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
462941160	genome	Tef	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	116.2	2e-36	11	101	1	90
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 +C aCk+lrrkCa++Cv+ap+f+ae+ +++fa++hk+FGasn kll+++ + +r++a+++++yeA+ar+rdP+yG+v++i++lqqq+++ 462941160 11 PCGACKFLRRKCAAECVFAPHFCAEDgAAQFAAIHKVFGASNAAKLLQQVAPGDRSEAAATVTYEAQARLRDPIYGCVAHIFALQQQVRTY 101 7*********************9989*********************************************************9876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	20.836	10	111	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.9E-35	11	101	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 116 aa Download sequence Send to blast
MASSAGGVGS PCGACKFLRR KCAAECVFAP HFCAEDGAAQ FAAIHKVFGA SNAAKLLQQV 60 APGDRSEAAA TVTYEAQARL RDPIYGCVAH IFALQQQVRT YACLYPGLPV LATPVK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-32	2	98	2	97	LOB family transfactor Ramosa2.1
5ly0_B	1e-32	2	98	2	97	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	462941160

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	EF051734	1e-119	EF051734.1 Zea mays RTCN mRNA, complete cds.
GenBank	KJ728375	1e-119	KJ728375.1 Zea mays clone pUT6657 LOB transcription factor (LOB21) mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015632118.1	4e-59	LOB domain-containing protein 16
Swissprot	Q5UG13	2e-46	LBD_ORYSJ; LOB domain-containing protein CRL1
TrEMBL	A0A0D3FDU9	3e-58	A0A0D3FDU9_9ORYZ; Uncharacterized protein
TrEMBL	A0A0D9Z237	3e-58	A0A0D9Z237_9ORYZ; Uncharacterized protein
TrEMBL	A0A0E0GGU8	3e-58	A0A0E0GGU8_ORYNI; Uncharacterized protein
TrEMBL	A0A0E0K8T7	7e-58	A0A0E0K8T7_ORYPU; Uncharacterized protein
TrEMBL	A0A0E0NPQ7	3e-58	A0A0E0NPQ7_ORYRU; Uncharacterized protein
STRING	OGLUM03G03700.1	5e-59	(Oryza glumipatula)
STRING	OMERI07G01720.1	4e-59	(Oryza meridionalis)
STRING	ORUFI03G03540.1	5e-59	(Oryza rufipogon)
STRING	ONIVA03G03570.1	5e-59	(Oryza nivara)
STRING	OPUNC03G03510.1	1e-58	(Oryza punctata)
STRING	OBART03G03820.1	5e-59	(Oryza barthii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP10262	33	44

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G42430.1	6e-48	lateral organ boundaries-domain 16

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]