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

Rsa1.0_01113.1_g00005.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus

Family

LBD

Protein Properties

Length: 188aa MW: 20810.7 Da PI: 6.8522

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_01113.1_g00005.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	141.3	3.2e-44	8	107	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqq 86 +Ca+Ck+lrr+CakdCv+apyfp ++p+kfa+vhk+FGasnv+k+l++lp ++r da++slv+eA+arardPvyG+vg i+ lq+q Rsa1.0_01113.1_g00005.1 8 PCASCKLLRRRCAKDCVFAPYFPPDDPHKFAIVHKVFGASNVSKMLQELPVHQRADAVNSLVFEANARARDPVYGCVGAISFLQNQ 93 7*********************************************************************************** PP DUF260 87 leqlkaelallkee 100 ++ql+ +la++++e Rsa1.0_01113.1_g00005.1 94 VSQLQMQLAVAQTE 107 *******99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	26.521	7	108	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.6E-43	8	105	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 188 aa Download sequence Send to blast
MGGPGSSPCA SCKLLRRRCA KDCVFAPYFP PDDPHKFAIV HKVFGASNVS KMLQELPVHQ 60 RADAVNSLVF EANARARDPV YGCVGAISFL QNQVSQLQMQ LAVAQTEILC IQMQHETTLQ 120 SHHQVLELDQ DDKALLPHSS NNNINNCNNS YNLGYAMSSG QLMSNFASPS SIMQMQMQDP 180 LKQESLWT

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	5e-49	4	109	6	112	LOB family transfactor Ramosa2.1
5ly0_B	5e-49	4	109	6	112	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_01113.1_g00005.1

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	AC232559	1e-169	AC232559.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH038M21, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018464983.1	1e-140	PREDICTED: LOB domain-containing protein 12-like
Swissprot	Q8LBW3	1e-107	LBD12_ARATH; LOB domain-containing protein 12
TrEMBL	A0A291LQZ8	1e-115	A0A291LQZ8_BRARR; Transcription factor LBD12b
TrEMBL	M4E1Y0	1e-116	M4E1Y0_BRARP; Uncharacterized protein
STRING	Bra022780.1-P	1e-116	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM131	28	340

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G30130.1	1e-109	LBD family protein

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]