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_68976.1_g00001.1

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: 110aa MW: 12344.1 Da PI: 8.2187

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_68976.1_g00001.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	145.1	2e-45	8	106	1	99
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqq 86 +CaaCk+lrrkC ++C++apyfp e+p+kfanvhk+FGasnv+kll++l +++reda++sl+yeAear+rdPvyG+vg i+ lq+q Rsa1.0_68976.1_g00001.1 8 PCAACKFLRRKCMPGCIFAPYFPPEEPHKFANVHKIFGASNVTKLLNELLPHQREDAVNSLAYEAEARVRDPVYGCVGAISYLQRQ 93 7*********************************************************************************** PP DUF260 87 leqlkaelallke 99 +++l++el+++++ Rsa1.0_68976.1_g00001.1 94 VHKLQKELDAANA 106 ******99876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	28.155	7	108	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	8.1E-45	8	105	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 110 aa Download sequence Send to blast
STNTYNSPCA ACKFLRRKCM PGCIFAPYFP PEEPHKFANV HKIFGASNVT KLLNELLPHQ 60 REDAVNSLAY EAEARVRDPV YGCVGAISYL QRQVHKLQKE LDAANADLVH

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	5e-65	1	109	4	112	LOB family transfactor Ramosa2.1
5ly0_B	5e-65	1	109	4	112	LOB family transfactor Ramosa2.1
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Functional Description ? help Back to Top
Source	Description
UniProt	Not known; ectopic expression of LOB leads to alterations in the size and shape of leaves and floral organs and causes male and female sterility.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_68976.1_g00001.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Positively regulated within the shoot apex by both ASYMMETRIC LEAVES 1 (AS1) and ASYMMETRIC LEAVES 2 (AS2/LBD6) and by KNAT1. {ECO:0000269\|PubMed:11934861}.

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	AB008265	1e-129	AB008265.1 Arabidopsis thaliana genomic DNA, chromosome 5, P1 clone:MDC12.
GenBank	AB164305	1e-129	AB164305.1 Arabidopsis thaliana ASL4 mRNA for ASYMMETRIC LEAVES2-like gene 4 protein, partial cds.
GenBank	AB473837	1e-129	AB473837.1 Arabidopsis thaliana ASL4 mRNA for ASYMMETRIC LEAVES2-like 4 protein, complete cds.
GenBank	AF447897	1e-129	AF447897.1 Arabidopsis thaliana LOBa (LOB) mRNA, complete cds; alternatively spliced.
GenBank	BT025745	1e-129	BT025745.1 Arabidopsis thaliana At5g63090 mRNA, complete cds.
GenBank	CP002688	1e-129	CP002688.1 Arabidopsis thaliana chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018492348.1	3e-78	PREDICTED: protein LATERAL ORGAN BOUNDARIES isoform X2
Swissprot	Q9FML4	5e-77	LOB_ARATH; Protein LATERAL ORGAN BOUNDARIES
TrEMBL	A0A078JVX7	1e-75	A0A078JVX7_BRANA; BnaAnng31240D protein
TrEMBL	A0A291LQX1	1e-75	A0A291LQX1_BRARR; Transcription factor LOB
TrEMBL	A0A397Z486	1e-75	A0A397Z486_BRACM; Uncharacterized protein
TrEMBL	M4FBZ0	1e-75	M4FBZ0_BRARP; Uncharacterized protein
STRING	Bra038606.1-P	2e-76	(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
AT5G63090.4	2e-79	LBD family protein

Publications ? help Back to Top
Xu C, et al. Control of auxin-induced callus formation by bZIP59-LBD complex in Arabidopsis regeneration. Nat Plants, 2018. 4(2): p. 108-115 [PMID:29358751] Liu J, et al. The WOX11-LBD16 Pathway Promotes Pluripotency Acquisition in Callus Cells During De Novo Shoot Regeneration in Tissue Culture. Plant Cell Physiol., 2018. 59(4): p. 734-743 [PMID:29361138]