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

Rsa1.0_00065.1_g00008.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus

Family

LBD

Protein Properties

Length: 166aa MW: 18424.3 Da PI: 8.5892

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00065.1_g00008.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	143.5	6.4e-45	13	112	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqq 86 +CaaCk+lrrkC+kdCv+apyfpa++p kfa+vhk+FGasnv k+l+ l+e++r+da++s+vyeA+ar++dPvyG+vg+i++lq+q Rsa1.0_00065.1_g00008.1 13 PCAACKLLRRKCVKDCVFAPYFPAKEPYKFAIVHKIFGASNVNKMLQVLSENHRSDAVNSIVYEANARVQDPVYGCVGIISSLQRQ 98 7*********************************************************************************** PP DUF260 87 leqlkaelallkee 100 le+l+++la +++e Rsa1.0_00065.1_g00008.1 99 LETLQTQLAFAQAE 112 *******99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	26.436	12	113	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	4.8E-43	13	110	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 166 aa Download sequence Send to blast
MRRKGHSHGA VSPCAACKLL RRKCVKDCVF APYFPAKEPY KFAIVHKIFG ASNVNKMLQV 60 LSENHRSDAV NSIVYEANAR VQDPVYGCVG IISSLQRQLE TLQTQLAFAQ AELVHMKTLH 120 RIESIDTKPP PYMASGISLP ANKDLSNDVD MAFVYENGAG ESLWLC

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	9e-45	9	114	7	112	LOB family transfactor Ramosa2.1
5ly0_B	9e-45	9	114	7	112	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_00065.1_g00008.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By cytokinin. {ECO:0000269\|PubMed:17485849}.

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	AB473842	1e-115	AB473842.1 Arabidopsis thaliana ASL9 mRNA for ASYMMETRIC LEAVES2-like 9 protein, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009149087.1	1e-116	PREDICTED: LOB domain-containing protein 3
Refseq	XP_013641646.1	1e-116	LOB domain-containing protein 3
Swissprot	Q9SA51	5e-95	LBD3_ARATH; LOB domain-containing protein 3
TrEMBL	A0A078JJD7	1e-115	A0A078JJD7_BRANA; BnaA06g38340D protein
TrEMBL	A0A291LQZ1	1e-115	A0A291LQZ1_BRARR; Transcription factor LBD3
TrEMBL	A0A397Z3B7	1e-115	A0A397Z3B7_BRACM; Uncharacterized protein
TrEMBL	M4EB83	1e-115	M4EB83_BRARP; Uncharacterized protein
STRING	Bra026042.1-P	1e-116	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM131	28	340

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G16530.1	5e-87	ASYMMETRIC LEAVES 2-like 9

Publications ? help Back to Top
Heyndrickx KS,Vandepoele K Systematic identification of functional plant modules through the integration of complementary data sources. Plant Physiol., 2012. 159(3): p. 884-901 [PMID:22589469]