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

Ciclev10002348m

Common Name

CICLE_v10002348mg

Organism

Citrus clementina

Taxonomic ID

85681

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus

Family

LBD

Protein Properties

Length: 235aa MW: 25388 Da PI: 9.6812

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Ciclev10002348m	genome	ICGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	131.5	3.4e-41	46	145	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkael 94 +CaaCk+lrr+Ca++C+++pyf ++p+kfa+vhk+FGasnv+kll+++p+++r da++slv+eA+ r+rdPvyG++g i++lqqq+++l+ael Ciclev10002348m 46 PCAACKLLRRRCAEECPFSPYFSPHEPQKFAAVHKVFGASNVSKLLSEVPDSQRADAANSLVFEANLRLRDPVYGCLGAISSLQQQVQSLQAEL 139 7********************************************************************************************* PP DUF260 95 allkee 100 +++++e Ciclev10002348m 140 NAMRTE 145 *99876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.482	45	146	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	2.6E-41	46	143	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 235 aa Download sequence Send to blast
MSRDRERFDE IGKRIKRESD VLNSQMGRRQ MLNPNSSAGT LNTVTPCAAC KLLRRRCAEE 60 CPFSPYFSPH EPQKFAAVHK VFGASNVSKL LSEVPDSQRA DAANSLVFEA NLRLRDPVYG 120 CLGAISSLQQ QVQSLQAELN AMRTEIMKYK YREAATASTI ISSSNPLFSS GVVSIVGGSS 180 APSLSTSQPP PHPPPPPPPS IVISSSSSSS VSSLYTPPMR TTDYVKALLV VMLK*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	8e-46	46	161	11	126	LOB family transfactor Ramosa2.1
5ly0_B	8e-46	46	161	11	126	LOB family transfactor Ramosa2.1
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Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in young shoots, roots, stems, leaves and flowers. {ECO:0000269\|PubMed:12068116}.

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	HG975445	4e-51	HG975445.1 Solanum pennellii chromosome ch06, complete genome.
GenBank	HG975518	4e-51	HG975518.1 Solanum lycopersicum chromosome ch06, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006431987.1	1e-170	LOB domain-containing protein 15 isoform X2
Refseq	XP_006468163.1	1e-170	LOB domain-containing protein 15 isoform X2
Swissprot	Q8L5T5	7e-78	LBD15_ARATH; LOB domain-containing protein 15
TrEMBL	V4SWR6	1e-169	V4SWR6_9ROSI; Uncharacterized protein
STRING	XP_006468163.1	1e-170	(Citrus sinensis)
STRING	XP_006431987.1	1e-170	(Citrus clementina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1927	27	81

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G40470.1	2e-76	LOB domain-containing protein 15

Link Out ? help Back to Top
Phytozome	Ciclev10002348m
Entrez Gene	18041214

Publications ? help Back to Top
Ohashi-Ito K,Iwamoto K,Fukuda H LOB DOMAIN-CONTAINING PROTEIN 15 Positively Regulates Expression of VND7, a Master Regulator of Tracheary Elements. Plant Cell Physiol., 2018. 59(5): p. 989-996 [PMID:29444288]