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

Carubv10027507m

Common Name

CARUB_v10027507mg

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: 252aa MW: 27082.4 Da PI: 7.9374

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10027507m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	100.9	1.2e-31	2	103	1	97
DUF260 1 aCaaCkvlrrkCakdCvlapyf.....paeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleq 89 +C++C+vlr++C+++C+l+p++ +++q +++ +v+k+FG++ ++++++a+pe++r+++++sl+yeA+ r+ +Pv+Ga+g++++++++++q Carubv10027507m 2 SCNGCRVLRKGCSENCILRPCIqwiesADAQGHATVFVAKFFGRAGLMSFISAVPESQRPALFQSLLYEACGRTVNPVNGAIGMLWTGNWNICQ 95 6*******************9998666778********************************************************** PP DUF260 90 lkaelall 97 +++e +l+ Carubv10027507m 96 AAVESVLR 103 998776 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	20.383	1	107	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	2.2E-26	2	100	IPR004883	Lateral organ boundaries, LOB

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006807	Biological Process	nitrogen compound metabolic process
GO:0060776	Biological Process	simple leaf morphogenesis

Sequence ? help Back to Top
Protein Sequence Length: 252 aa Download sequence Send to blast
MSCNGCRVLR KGCSENCILR PCIQWIESAD AQGHATVFVA KFFGRAGLMS FISAVPESQR 60 PALFQSLLYE ACGRTVNPVN GAIGMLWTGN WNICQAAVES VLRGGSLRPI PELLAHGGGF 120 AGFPSPTSEE ASEICTEMLN LQQNDSTDRN IYHHSRFSSS RSRSTMDSSS PPTKRKRVTT 180 SEQQPSSELD LSLIPKSTPS SSTRRRSLTP SMNSEDSVTT TTTASFCDKG DVYGNGNGGG 240 VETSKLLNLF V*

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10027507m

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	AB473872	0.0	AB473872.1 Arabidopsis thaliana ASL39 mRNA for ASYMMETRIC LEAVES2-like 39 protein, complete cds.
GenBank	AF447894	0.0	AF447894.1 Arabidopsis thaliana LOB DOMAIN 37 (LBD37) mRNA, complete cds.
GenBank	BT024477	0.0	BT024477.1 Arabidopsis thaliana At5g67420 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006281433.1	0.0	LOB domain-containing protein 37
Swissprot	Q9FN11	1e-147	LBD37_ARATH; LOB domain-containing protein 37
TrEMBL	R0EZD1	0.0	R0EZD1_9BRAS; Uncharacterized protein
STRING	XP_006281433.1	0.0	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM821	28	122

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G67420.1	1e-133	LOB domain-containing protein 37

Link Out ? help Back to Top
Phytozome	Carubv10027507m
Entrez Gene	17876777

Publications ? help Back to Top
Menz J,Li Z,Schulze WX,Ludewig U Early nitrogen-deprivation responses in Arabidopsis roots reveal distinct differences on transcriptome and (phospho-) proteome levels between nitrate and ammonium nutrition. Plant J., 2016. 88(5): p. 717-734 [PMID:27419465]