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.339980.1

Common Name

Csa_3G839790

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: 196aa MW: 21837.4 Da PI: 8.6332

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.339980.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	141.7	2.3e-44	28	126	1	99
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaela 95 +CaaCk+lrrkC +dCv+apyfp e+p+kfanvhk+FGasnv+kll+++++++reda++sl+yeAear++dPvyG+vg i+ lq+q+ +l++el+ Cucsa.339980.1 28 PCAACKFLRRKCLPDCVFAPYFPPEEPQKFANVHKIFGASNVSKLLNEVQPHQREDAVNSLAYEAEARMKDPVYGCVGAISILQRQVIKLQKELD 122 7*********************************************************************************************9 PP DUF260 96 llke 99 ++++ Cucsa.339980.1 123 ATNA 126 9876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	27.626	27	128	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	7.5E-44	28	125	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 196 aa Download sequence Send to blast
MLKQQLTERR ERGKNYWKMS SSTYSNSPCA ACKFLRRKCL PDCVFAPYFP PEEPQKFANV 60 HKIFGASNVS KLLNEVQPHQ REDAVNSLAY EAEARMKDPV YGCVGAISIL QRQVIKLQKE 120 LDATNADLIR YACSEIPAPS PSSSSQYARR SSSTSHEGSS STSSYGHYYT GLYFSPWSNN 180 NNGPCGDGHD KGEYK*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-67	25	136	8	119	LOB family transfactor Ramosa2.1
5ly0_B	2e-67	25	136	8	119	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	LN681841	0.0	LN681841.1 Cucumis melo genomic scaffold, anchoredscaffold00011.
GenBank	LN713258	0.0	LN713258.1 Cucumis melo genomic chromosome, chr_4.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004141196.1	1e-146	PREDICTED: LOB domain-containing protein 25-like isoform X1
Swissprot	Q8L8Q3	4e-68	LBD25_ARATH; LOB domain-containing protein 25
TrEMBL	A0A0A0LI15	1e-144	A0A0A0LI15_CUCSA; Uncharacterized protein
STRING	XP_004141196.1	1e-145	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1091	34	112

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G27650.1	2e-69	LOB domain-containing protein 25

Link Out ? help Back to Top
Phytozome	Cucsa.339980.1

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] Kim M,Kim MJ,Pandey S,Kim J Expression and Protein Interaction Analyses Reveal Combinatorial Interactions of LBD Transcription Factors During Arabidopsis Pollen Development. Plant Cell Physiol., 2016. 57(11): p. 2291-2299 [PMID:27519310]