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

Sobic.001G147000.1.p

Common Name

Sb01g012810, SORBIDRAFT_01g012810

Organism

Sorghum bicolor

Taxonomic ID

4558

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum

Family

LBD

Protein Properties

Length: 208aa MW: 21403.2 Da PI: 8.1332

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.001G147000.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	141.4	3e-44	36	135	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleq 89 +CaaCk+lrr+Ca++Cv+apyfp +p+kfanvhk+FGasnv+kll+++p ++r da+sslvyeA+ar+rdPvyG+vg i++lqqq+e+ Sobic.001G147000.1.p 36 PCAACKLLRRRCAAGCVFAPYFPPGEPHKFANVHKVFGASNVSKLLQEIPVQHRGDAVSSLVYEANARVRDPVYGCVGAISSLQQQVET 124 7************************************************************************************** PP DUF260 90 lkaelallkee 100 l+a+lal+++e Sobic.001G147000.1.p 125 LQAQLALAQAE 135 *****9986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.737	35	136	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	9.3E-44	36	133	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 208 aa Download sequence Send to blast
MRDAVVVMAV PGAAAGAGGG KSGSGGGAGG AASAAPCAAC KLLRRRCAAG CVFAPYFPPG 60 EPHKFANVHK VFGASNVSKL LQEIPVQHRG DAVSSLVYEA NARVRDPVYG CVGAISSLQQ 120 QVETLQAQLA LAQAEMVRLR MSNDYILHRL KAASRANGGG GSSYTGSPSS MSSPKTAEPE 180 AHCNATPELL DMVVDQPSMD DAHFWSY*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-50	35	138	10	113	LOB family transfactor Ramosa2.1
5ly0_B	1e-50	35	138	10	113	LOB family transfactor Ramosa2.1
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	18	26	GGKSGSGGG

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed predominantly in roots, and at low levels in shoots, floral stems and open flowers. {ECO:0000269\|PubMed:12068116}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sobic.001G147000.1.p

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	BT069911	0.0	BT069911.1 Zea mays full-length cDNA clone ZM_BFb0321D10 mRNA, complete cds.
GenBank	KJ727650	0.0	KJ727650.1 Zea mays clone pUT5577 LOB transcription factor (LOB19) mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002466719.1	1e-151	LOB domain-containing protein 4 isoform X1
Swissprot	Q8LBW3	3e-57	LBD12_ARATH; LOB domain-containing protein 12
TrEMBL	C5WQF3	1e-149	C5WQF3_SORBI; Uncharacterized protein
STRING	Sb01g012810.1	1e-150	(Sorghum bicolor)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP882	38	150
Representative plant	OGRP60	16	318

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G31320.1	1e-37	LOB domain-containing protein 4

Link Out ? help Back to Top
Phytozome	Sobic.001G147000.1.p
Entrez Gene	8056762

Publications ? help Back to Top
Penfield S, et al. Reserve mobilization in the Arabidopsis endosperm fuels hypocotyl elongation in the dark, is independent of abscisic acid, and requires PHOSPHOENOLPYRUVATE CARBOXYKINASE1. Plant Cell, 2004. 16(10): p. 2705-18 [PMID:15367715]