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

Carubv10015898m

Common Name

CARUB_v10015898mg

Organism

Capsella rubella

Taxonomic ID

81985

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: 164aa MW: 17910.6 Da PI: 7.0142

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10015898m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	123.8	8.5e-39	11	110	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkael 94 +CaaCk+l+r+C++ C++apyf +++ +fa vhk+FGasnv+kll ++pee+r+++++sl+yeAe+r++dPvyG++g i +lq+++ +l+++l Carubv10015898m 11 SCAACKLLKRRCTPTCIFAPYFRSSDLITFAKVHKVFGASNVSKLLGEVPEEQRQETVNSLAYEAEVRLKDPVYGCIGAIASLQKKMLELQHDL 104 6********************************************************************************************* PP DUF260 95 allkee 100 a+++++ Carubv10015898m 105 AVARTR 110 999875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	24.679	10	111	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	6.3E-38	11	108	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 164 aa Download sequence Send to blast
MRGHEPRSSS SCAACKLLKR RCTPTCIFAP YFRSSDLITF AKVHKVFGAS NVSKLLGEVP 60 EEQRQETVNS LAYEAEVRLK DPVYGCIGAI ASLQKKMLEL QHDLAVARTR LLAHSGGNNH 120 VSPLDNSPEL AAFLDLVPYS DLMLLDGSSL DAYLYDLGQP PFV*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	3e-42	6	118	6	118	LOB family transfactor Ramosa2.1
5ly0_B	3e-42	6	118	6	118	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10015898m

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	AC254608	0.0	AC254608.1 Capsella rubella clone CAP16-D12, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_023641520.1	1e-118	LOB domain-containing protein 21
Swissprot	Q9SRL8	1e-112	LBD21_ARATH; LOB domain-containing protein 21
TrEMBL	R0HVY9	1e-117	R0HVY9_9BRAS; Uncharacterized protein
STRING	Cagra.1655s0059.1.p	1e-117	(Capsella grandiflora)
STRING	XP_006296657.1	1e-117	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM10255	27	35

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G11090.1	1e-104	LOB domain-containing protein 21

Link Out ? help Back to Top
Phytozome	Carubv10015898m
Entrez Gene	17891094

Publications ? help Back to Top
Weber AP,Weber KL,Carr K,Wilkerson C,Ohlrogge JB Sampling the Arabidopsis transcriptome with massively parallel pyrosequencing. Plant Physiol., 2007. 144(1): p. 32-42 [PMID:17351049]