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

mrna08254.1-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: 213aa MW: 23318.5 Da PI: 8.1553

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
mrna08254.1-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	122.4	2.4e-38	30	130	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqq 85 +C aCk+lrrkC+++C++apyf++eq + +fa++h++FGasnv+kll++lp ++r a+ ++ yeA+ar++dPvyG+v++i++lqq mrna08254.1-v1.0-hybrid 30 PCGACKFLRRKCVRGCIFAPYFCHEQgATHFAAIHRVFGASNVSKLLAQLPINDRCSAALTISYEAQARVQDPVYGCVSHIFALQQ 115 7***********************89****************************************************** PP DUF260 86 qleqlkaelallkee 100 q+ +l+a+la++ke+ mrna08254.1-v1.0-hybrid 116 QVINLQAQLASAKEQ 130 *********9987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	22.234	29	131	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	7.1E-37	30	128	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 213 aa Download sequence Send to blast
MASHTPFASF LKCTSTLDSK ISMTGSAGSP CGACKFLRRK CVRGCIFAPY FCHEQGATHF 60 AAIHRVFGAS NVSKLLAQLP INDRCSAALT ISYEAQARVQ DPVYGCVSHI FALQQQVINL 120 QAQLASAKEQ ASKSNSTGSD NSLNPSWLQY SENLNMMNQQ HPNCFGNDEN FMVPELLNDI 180 YGRVKTSMQY DHFDGVASSV LEPILIRPRS RS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	4e-36	24	127	5	107	LOB family transfactor Ramosa2.1
5ly0_B	4e-36	24	127	5	107	LOB family transfactor Ramosa2.1
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Involved in lateral root formation. Regulated by the transcriptional activators ARF7 and ARF19. {ECO:0000269\|PubMed:17259263}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	mrna08254.1-v1.0-hybrid

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin. {ECO:0000269\|PubMed:15659631, ECO:0000269\|PubMed:17259263}.

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_004289921.1	1e-119	PREDICTED: LOB domain-containing protein 29-like
Swissprot	Q9M2J7	4e-61	LBD29_ARATH; LOB domain-containing protein 29
TrEMBL	A0A2P6PVF9	1e-105	A0A2P6PVF9_ROSCH; Putative transcription factor AS2-LOB family
STRING	XP_004289921.1	1e-118	(Fragaria vesca)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF3571	33	66

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G58190.1	2e-63	lateral organ boundaries-domain 29

Link Out ? help Back to Top
Phytozome	mrna08254.1-v1.0-hybrid

Publications ? help Back to Top
Gupta A,Singh M,Laxmi A Interaction between glucose and brassinosteroid during the regulation of lateral root development in Arabidopsis. Plant Physiol., 2015. 168(1): p. 307-20 [PMID:25810094] Porco S, et al. Lateral root emergence in Arabidopsis is dependent on transcription factor LBD29 regulation of auxin influx carrier LAX3. Development, 2016. 143(18): p. 3340-9 [PMID:27578783] Lee K,Seo PJ High-temperature promotion of callus formation requires the BIN2-ARF-LBD axis in Arabidopsis. Planta, 2017. 246(4): p. 797-802 [PMID:28766014] Xu C,Cao H,Xu E,Zhang S,Hu Y Genome-Wide Identification of Arabidopsis LBD29 Target Genes Reveals the Molecular Events behind Auxin-Induced Cell Reprogramming during Callus Formation. Plant Cell Physiol., 2018. 59(4): p. 744-755 [PMID:29121271] 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]