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

Cagra.2117s0054.1.p

Organism

Capsella grandiflora

Taxonomic ID

264402

Taxonomic Lineage

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

Family

LBD

Protein Properties

Length: 187aa MW: 20910.3 Da PI: 5.9972

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cagra.2117s0054.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	116.8	1.3e-36	8	108	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleq 89 +C aCk+lrrkC+ dCv++pyf eq +++fa+vhk+FGasnv+k l +lp ++r+ a+ ++ yeA r+rdPvyG+v++i++l+qq+ + Cagra.2117s0054.1.p 8 SCGACKFLRRKCTCDCVFSPYFSYEQaSSHFAAVHKVFGASNVSKHLLQLPLHQRSVAAITISYEALSRMRDPVYGCVAHIFALHQQVVS 97 6*********************9978********************************************************** PP DUF260 90 lkaelallkee 100 l++e++ l+++ Cagra.2117s0054.1.p 98 LQEEIEFLGSQ 108 ***998876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	22.101	7	109	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	2.5E-34	8	104	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 187 aa Download sequence Send to blast
MAGHGSSSCG ACKFLRRKCT CDCVFSPYFS YEQASSHFAA VHKVFGASNV SKHLLQLPLH 60 QRSVAAITIS YEALSRMRDP VYGCVAHIFA LHQQVVSLQE EIEFLGSQMT NLSYSNQNGS 120 QFNNVPEFVN QVTTVDTTNF VDEISVWNNH DDGRNCVDGF FANSEEMVVN HTWLQNTDYY 180 YCAPQN*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	3e-32	5	119	8	121	LOB family transfactor Ramosa2.1
5ly0_B	3e-32	5	119	8	121	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Cagra.2117s0054.1.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin. {ECO:0000269\|PubMed:17259263}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006289422.1	1e-132	LOB domain-containing protein 33
Swissprot	Q9LHS8	1e-109	LBD33_ARATH; LOB domain-containing protein 33
TrEMBL	R0HBB9	1e-130	R0HBB9_9BRAS; Uncharacterized protein
STRING	Cagra.2117s0054.1.p	1e-139	(Capsella grandiflora)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM108	28	359

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G06080.1	1e-111	LOB domain-containing protein 33

Link Out ? help Back to Top
Phytozome	Cagra.2117s0054.1.p

Publications ? help Back to Top
Bargmann BO,Birnbaum KD,Brenner ED An undergraduate study of two transcription factors that promote lateral root formation. Biochem Mol Biol Educ, 2014 May-Jun. 42(3): p. 237-45 [PMID:24615800]