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

XP_009112059.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

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

Family

LBD

Protein Properties

Length: 176aa MW: 19265.8 Da PI: 8.371

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009112059.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	135.9	1.5e-42	12	110	1	99
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaela 95 +CaaC +lrrkC ++C+ pyfp e+p+kfanvhk+FGasnv+kll++l +++reda++sl+yeAear+rdPvyG+vg i+ lq+q+++l++el+ XP_009112059.1 12 PCAACTFLRRKCMPGCISPPYFPPEEPHKFANVHKIFGASNVTKLLNELLPHQREDAVNSLAYEAEARVRDPVYGCVGAISYLQRQVHRLQKELD 106 7*********************************************************************************************9 PP DUF260 96 llke 99 ++++ XP_009112059.1 107 AANA 110 9876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	26.757	11	112	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	2.0E-41	12	109	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 176 aa Download sequence Send to blast
MASSSSNTYK SPCAACTFLR RKCMPGCISP PYFPPEEPHK FANVHKIFGA SNVTKLLNEL 60 LPHQREDAVN SLAYEAEARV RDPVYGCVGA ISYLQRQVHR LQKELDAANA DLVHYGLSTS 120 TPSNVVDLVF QPQPLPQQPQ QVNPVYRLPG ASRGTGGSCG TFLPWNNGHN QQGGNM

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-62	11	122	10	127	LOB family transfactor Ramosa2.1
5ly0_B	2e-62	11	122	10	127	LOB family transfactor Ramosa2.1
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in a band of cells at the adaxial base of all lateral organs formed from the shoot apical meristem and at the base of lateral roots. {ECO:0000269\|PubMed:12068116}.

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	XP_009112059.1

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-130	AB008265.1 Arabidopsis thaliana genomic DNA, chromosome 5, P1 clone:MDC12.
GenBank	AB164305	1e-130	AB164305.1 Arabidopsis thaliana ASL4 mRNA for ASYMMETRIC LEAVES2-like gene 4 protein, partial cds.
GenBank	AB473837	1e-130	AB473837.1 Arabidopsis thaliana ASL4 mRNA for ASYMMETRIC LEAVES2-like 4 protein, complete cds.
GenBank	AF447897	1e-130	AF447897.1 Arabidopsis thaliana LOBa (LOB) mRNA, complete cds; alternatively spliced.
GenBank	BT025745	1e-130	BT025745.1 Arabidopsis thaliana At5g63090 mRNA, complete cds.
GenBank	CP002688	1e-130	CP002688.1 Arabidopsis thaliana chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009112059.1	1e-130	PREDICTED: protein LATERAL ORGAN BOUNDARIES
Swissprot	Q9FML4	1e-109	LOB_ARATH; Protein LATERAL ORGAN BOUNDARIES
TrEMBL	A0A291LQX2	1e-129	A0A291LQX2_BRARR; Transcription factor LOBa
TrEMBL	M4F460	1e-129	M4F460_BRARP; Uncharacterized protein
STRING	Bra035860.1-P	1e-130	(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-95	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]