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

WALNUT_00005566-RA

Organism

Juglans regia

Taxonomic ID

51240

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fagales; Juglandaceae; Juglans

Family

LBD

Protein Properties

Length: 231aa MW: 25513.3 Da PI: 5.7551

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
WALNUT_00005566-RA	genome	JHU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	123.7	9.5e-39	7	106	1	99
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 +C aCk+lrrkC+++Cv+apyf++eq + +f ++hk+FGasnv+kll++lp ++r +a+ ++ yeA+ar++dP+yG+v++i++lqqq+ +l WALNUT_00005566-RA 7 PCGACKFLRRKCVRGCVFAPYFCHEQgATHFSAIHKVFGASNVSKLLAHLPVSDRCEAAVTISYEAQARLQDPIYGCVSHIFALQQQVVNL 97 7***********************89*********************************************************** PP DUF260 91 kaelallke 99 +++la+lke WALNUT_00005566-RA 98 QTQLASLKE 106 **99875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	21.837	6	108	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	5.4E-37	7	105	IPR004883	Lateral organ boundaries, LOB

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010311	Biological Process	lateral root formation
GO:0005634	Cellular Component	nucleus

Sequence ? help Back to Top
Protein Sequence Length: 231 aa Download sequence Send to blast
MTGSGSPCGA CKFLRRKCVR GCVFAPYFCH EQGATHFSAI HKVFGASNVS KLLAHLPVSD 60 RCEAAVTISY EAQARLQDPI YGCVSHIFAL QQQVVNLQTQ LASLKELQAA QNFPDGSVNA 120 NPNEKCNGRP SHPQDVQSWF QSEITNYMMP QFSTNIISNN ASTIPYDENV FMENSFGNYG 180 SSVNPEENAS NACYEEASHS MSSLDLHKNN IQWTLQNADH DLDQSVAFGY M

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	5e-35	3	101	7	104	LOB family transfactor Ramosa2.1
5ly0_B	5e-35	3	101	7	104	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}.

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_018827177.1	1e-175	PREDICTED: LOB domain-containing protein 14-like
Swissprot	Q9M2J7	1e-65	LBD29_ARATH; LOB domain-containing protein 29
TrEMBL	A0A2I4F6B3	1e-173	A0A2I4F6B3_JUGRE; LOB domain-containing protein 14-like
STRING	VIT_07s0005g03020.t01	1e-106	(Vitis vinifera)

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	1e-58	lateral organ boundaries-domain 29

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]