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.236600.1

Common Name

Csa_1G713680, LOC101202930

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: 171aa MW: 18576.1 Da PI: 8.2231

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.236600.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	145.1	2e-45	15	114	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaela 95 +CaaCk+lrr+C ++Cv+apyfpa+qp+kfanvhk+FGasnv k+l++lp ++r da+sslvyeA+ar+rdPvyG+vg i++lq+q++ l+++la Cucsa.236600.1 15 PCAACKLLRRRCGEECVFAPYFPADQPHKFANVHKVFGASNVNKMLQELPIHQRGDAVSSLVYEANARVRDPVYGCVGAISSLQHQIDALQTQLA 109 7********************************************************************************************** PP DUF260 96 llkee 100 l+++e Cucsa.236600.1 110 LAQAE 114 99976 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	26.455	14	115	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	5.4E-45	15	112	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 171 aa Download sequence Send to blast
MKTENGRKQG GGAAPCAACK LLRRRCGEEC VFAPYFPADQ PHKFANVHKV FGASNVNKML 60 QELPIHQRGD AVSSLVYEAN ARVRDPVYGC VGAISSLQHQ IDALQTQLAL AQAEVVHLRV 120 RQTASFSNYG LSPTSPSNSG SPSSRLMGSQ SRTMFEMDMV VDQAMEESMW *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-49	11	116	7	112	LOB family transfactor Ramosa2.1
5ly0_B	2e-49	11	116	7	112	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	LN681931	1e-153	LN681931.1 Cucumis melo genomic scaffold, anchoredscaffold00049.
GenBank	LN713266	1e-153	LN713266.1 Cucumis melo genomic chromosome, chr_12.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004145462.1	1e-126	PREDICTED: LOB domain-containing protein 4-like
Swissprot	Q9SHE9	1e-71	LBD4_ARATH; LOB domain-containing protein 4
TrEMBL	A0A0A0LYG0	1e-125	A0A0A0LYG0_CUCSA; Uncharacterized protein
STRING	XP_004145462.1	1e-125	(Cucumis sativus)
STRING	XP_004164216.1	1e-125	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1334	34	105

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G31320.1	8e-69	LOB domain-containing protein 4

Link Out ? help Back to Top
Phytozome	Cucsa.236600.1
Entrez Gene	101202930

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]