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

maker-scaffold12796-snap-gene-0.5-mRNA-1

Organism

Castanea mollissima

Taxonomic ID

60419

Taxonomic Lineage

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

Family

LBD

Protein Properties

Length: 274aa MW: 30256.3 Da PI: 6.3821

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
maker-scaffold12796-snap-gene-0.5-mRNA-1	genome	THGP	View Nucleic Acid

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	122.7	2e-38	32	131	1	99
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAear 68 +C aCk+lrrkC+++Cv+apyf++eq + +fa +h +FGasnv+kll++lp +er++a+ ++ yeA+ar maker-scaffold12796-snap-gene-0.5-mRNA-1 32 PCGACKFLRRKCVRGCVFAPYFCHEQgATHFATIHNVFGASNVSKLLAHLPVSERSEAAVTISYEAQAR 100 7***********************89************************************* PP DUF260 69 ardPvyGavgvilklqqqleqlkaelallke 99 ++dP+yG+v+++l+lqqq+ +l+a+la+lke maker-scaffold12796-snap-gene-0.5-mRNA-1 101 LQDPIYGCVSHVLALQQQVVNLQAQLASLKE 131 ************************99875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	21.762	31	133	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	7.7E-37	32	130	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 274 aa Download sequence Send to blast
MVIMPGTKLR NPTSNIKIKP QKIIKMTGPG SPCGACKFLR RKCVRGCVFA PYFCHEQGAT 60 HFATIHNVFG ASNVSKLLAH LPVSERSEAA VTISYEAQAR LQDPIYGCVS HVLALQQQVV 120 NLQAQLASLK ELQAAQSFLN GSASANPNEK YYGNPSHPQD VQSWFQLEIS NMMQQFNPNI 180 NNNASTMPYQ ENMSMSNSMG NYGNSNIPEE IYASYGSSYE EASHPMSSLD MNIYNKQWSL 240 QETDDLQSAA FGYMIEDMGL GVTDLSILNC CTIL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	4e-35	28	147	7	127	LOB family transfactor Ramosa2.1
5ly0_B	4e-35	28	147	7	127	LOB family transfactor Ramosa2.1
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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_023891488.1	1e-165	LOB domain-containing protein 29-like
Swissprot	Q9M2J7	1e-64	LBD29_ARATH; LOB domain-containing protein 29
TrEMBL	A0A2N9HGQ9	1e-133	A0A2N9HGQ9_FAGSY; Uncharacterized protein
STRING	POPTR_0002s04200.1	1e-110	(Populus trichocarpa)

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	6e-53	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]