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

mrna19355.1-v1.0-hybrid

Organism

Fragaria vesca

Taxonomic ID

57918

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Rosoideae; Potentilleae; Fragariinae; Fragaria

Family

LBD

Protein Properties

Length: 244aa MW: 25145.6 Da PI: 8.0431

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
mrna19355.1-v1.0-hybrid	genome	GDR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	127.3	6.9e-40	31	131	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqq 85 +C aCk+lrrkC+++C++apyf +eq +++fa+vhk+FGasnv+kll+++p ++r+da+ ++++eA+ar++dPvyG+v++i++lqq mrna19355.1-v1.0-hybrid 31 PCGACKFLRRKCVAGCIFAPYFDSEQgAAHFAAVHKVFGASNVSKLLHHIPAHKRPDAVLTVCFEAQARLKDPVYGCVAHIFALQQ 116 7*********************9989****************************************************** PP DUF260 86 qleqlkaelallkee 100 q+ +l+ae+++l+++ mrna19355.1-v1.0-hybrid 117 QVVNLQAEISYLQAH 131 ********99986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	23.055	30	132	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	8.1E-39	31	129	IPR004883	Lateral organ boundaries, LOB

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010089	Biological Process	xylem development
GO:0010199	Biological Process	organ boundary specification between lateral organs and the meristem

Sequence ? help Back to Top
Protein Sequence Length: 244 aa Download sequence Send to blast
MNATTNPSGG CGGGGGSSSG GSAGGGGNAG PCGACKFLRR KCVAGCIFAP YFDSEQGAAH 60 FAAVHKVFGA SNVSKLLHHI PAHKRPDAVL TVCFEAQARL KDPVYGCVAH IFALQQQVVN 120 LQAEISYLQA HLATMELPSP PPPPPPLIAQ PQLSIADLPS APMPATYDLS SLFEPMVQPT 180 AWVMQQRALL HNQHHQFVGG SSSGGVGGGG DLQALARELL HRHTGSPSGS VPCSEASPSR 240 SLSK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-36	27	132	7	111	LOB family transfactor Ramosa2.1
5ly0_B	1e-36	27	132	7	111	LOB family transfactor Ramosa2.1
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Involved in the positive regulation of tracheary element (TE) differentiation. Involved in a positive feedback loop that maintains or promotes NAC030/VND7 expression that regulates TE differentiation-related genes. {ECO:0000269\|PubMed:19088331}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	mrna19355.1-v1.0-hybrid

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004306912.1	1e-177	PREDICTED: LOB domain-containing protein 30
Swissprot	O81323	2e-81	LBD30_ARATH; LOB domain-containing protein 30
TrEMBL	A0A2P6SG43	1e-128	A0A2P6SG43_ROSCH; Putative transcription factor AS2-LOB family
STRING	XP_004306912.1	1e-177	(Fragaria vesca)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1771	34	93

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G45420.1	1e-78	LOB domain-containing protein 18

Link Out ? help Back to Top
Phytozome	mrna19355.1-v1.0-hybrid

Publications ? help Back to Top
Rast-Somssich MI, et al. The Arabidopsis JAGGED LATERAL ORGANS (JLO) gene sensitizes plants to auxin. J. Exp. Bot., 2017. 68(11): p. 2741-2755 [PMID:28472464] Liu C,Yu H,Li L SUMO modification of LBD30 by SIZ1 regulates secondary cell wall formation in Arabidopsis thaliana. PLoS Genet., 2019. 15(1): p. e1007928 [PMID:30657769]