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.052720.1

Common Name

Csa_6G290790, LOC101215067

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: 201aa MW: 21715.5 Da PI: 6.0909

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.052720.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	135.9	1.5e-42	37	136	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaela 95 +CaaCk+lrr+Ca+ Cvlapyfp ++p+kfa++h++FGasn++k+l++lpe++r da+sslvyeA ar+rdPvyG++g i +lq+q+++l+a+la Cucsa.052720.1 37 PCAACKILRRRCAERCVLAPYFPPSEPAKFAIAHRVFGASNIIKFLQELPESQRADAVSSLVYEASARVRDPVYGSAGAICQLQKQVNELQAQLA 131 7********************************************************************************************** PP DUF260 96 llkee 100 ++++e Cucsa.052720.1 132 KAQAE 136 *9976 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	26.209	36	137	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.9E-42	37	134	IPR004883	Lateral organ boundaries, LOB

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005739	Cellular Component	mitochondrion

Sequence ? help Back to Top
Protein Sequence Length: 201 aa Download sequence Send to blast
MEGSDTITVT TVSSTPLSQS PSSSSSPAPP PPVILSPCAA CKILRRRCAE RCVLAPYFPP 60 SEPAKFAIAH RVFGASNIIK FLQELPESQR ADAVSSLVYE ASARVRDPVY GSAGAICQLQ 120 KQVNELQAQL AKAQAEVVNM QCQQANLVAF VCRELAQSHQ SFDEFNGSPQ SHNGLLQSIH 180 PPSYFDDSNN VNSLWEPLWT *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-43	28	144	2	118	LOB family transfactor Ramosa2.1
5ly0_B	2e-43	28	144	2	118	LOB family transfactor Ramosa2.1
Search in ModeBase

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	LN681922	1e-168	LN681922.1 Cucumis melo genomic scaffold, anchoredscaffold00082.
GenBank	LN713265	1e-168	LN713265.1 Cucumis melo genomic chromosome, chr_11.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004149555.1	1e-145	PREDICTED: LOB domain-containing protein 1-like
Swissprot	Q9LQR0	3e-72	LBD1_ARATH; LOB domain-containing protein 1
TrEMBL	A0A0A0KCM5	1e-144	A0A0A0KCM5_CUCSA; Uncharacterized protein
STRING	XP_004149555.1	1e-145	(Cucumis sativus)
STRING	XP_004167808.1	1e-145	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1303	34	106

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G07900.1	9e-63	LOB domain-containing protein 1

Link Out ? help Back to Top
Phytozome	Cucsa.052720.1
Entrez Gene	101215067

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]