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

Cucsa.388160.1

Common Name

Csa_7G373460, LOC101220863

Organism

Cucumis sativus

Taxonomic ID

3659

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis

Family

LBD

Protein Properties

Length: 165aa MW: 18138.7 Da PI: 7.4045

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.388160.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	120.1	1.3e-37	11	111	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkael 94 +C aCk+lrrkC+++C++apyf +e +++f ++hk+FGasn +kll++lp ++r +a+ ++ yeA+ar++dP+yG+v++i +lqqq+++l+a++ Cucsa.388160.1 11 PCGACKFLRRKCVNGCIFAPYFRHELgASHFSAIHKVFGASNASKLLAHLPVSHRCEAAVTISYEAQARLQDPIYGCVSHIIALQQQVMNLRAQV 105 7*********************9989***************************************************************** PP DUF260 95 allkee 100 a+l+e+ Cucsa.388160.1 106 AYLREQ 111 *99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	21.478	10	112	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.1E-35	11	109	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 165 aa Download sequence Send to blast
MAASSSSSTP PCGACKFLRR KCVNGCIFAP YFRHELGASH FSAIHKVFGA SNASKLLAHL 60 PVSHRCEAAV TISYEAQARL QDPIYGCVSH IIALQQQVMN LRAQVAYLRE QAAQILLNNY 120 TTRNPTELLY EKSPFCYSDD PFLDLQSWLL AESCSATAPE LEPAA

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	8e-32	2	105	2	104	LOB family transfactor Ramosa2.1
5ly0_B	8e-32	2	105	2	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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	LN681800	1e-132	LN681800.1 Cucumis melo genomic scaffold, anchoredscaffold00017.
GenBank	LN713255	1e-132	LN713255.1 Cucumis melo genomic chromosome, chr_1.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004150342.1	1e-119	PREDICTED: LOB domain-containing protein 29
Swissprot	Q9M2J7	4e-61	LBD29_ARATH; LOB domain-containing protein 29
TrEMBL	A0A0A0K5D4	1e-118	A0A0A0K5D4_CUCSA; Uncharacterized protein
STRING	XP_004150342.1	1e-119	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF24708	3	3

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	Cucsa.388160.1
Entrez Gene	101220863

Publications ? help Back to Top
Ren Y, et al. An integrated genetic and cytogenetic map of the cucumber genome. PLoS ONE, 2009. 4(6): p. e5795 [PMID:19495411] Guo S, et al. Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types. BMC Genomics, 2010. 11: p. 384 [PMID:20565788] Li Z, et al. RNA-Seq improves annotation of protein-coding genes in the cucumber genome. BMC Genomics, 2011. 12: p. 540 [PMID:22047402] 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]