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

XP_013587709.1

Organism

Brassica oleracea

Taxonomic ID

3712

Taxonomic Lineage

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

Family

LBD

Protein Properties

Length: 171aa MW: 18692.4 Da PI: 7.0967

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013587709.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	124.5	5.2e-39	11	110	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaela 95 +CaaCk+l+r+C++ C++ap+f ++++ +fa vhk+FGasnv+kll+++pee+r+++++sl+yeA++r++dPvyG++g i +lq+++ +l++++a XP_013587709.1 11 SCAACKLLKRRCTPTCIFAPHFRSSDQITFAKVHKVFGASNVSKLLSEVPEEQRQETVNSLAYEADVRLKDPVYGCIGAIASLQKKMLELQHDIA 105 6********************************************************************************************** PP DUF260 96 llkee 100 +++++ XP_013587709.1 106 VARNR 110 99876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	24.5	10	111	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	2.5E-38	11	108	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 171 aa Download sequence Send to blast
MRGHEPRSSS SCAACKLLKR RCTPTCIFAP HFRSSDQITF AKVHKVFGAS NVSKLLSEVP 60 EEQRQETVNS LAYEADVRLK DPVYGCIGAI ASLQKKMLEL QHDIAVARNR LLAHNAAGGV 120 NNNNSHVLLS PLDDSPQLAA FLDLVPYSDL MLLDGSGLDA YLFDIGQPPF V

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-39	6	120	6	122	LOB family transfactor Ramosa2.1
5ly0_B	1e-39	6	120	6	122	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_013587709.1

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	AB473845	1e-132	AB473845.1 Arabidopsis thaliana ASL12 mRNA for ASYMMETRIC LEAVES2-like 12 protein, complete cds.
GenBank	AC073395	1e-132	AC073395.6 Arabidopsis thaliana chromosome 3 BAC F11B9 genomic sequence, complete sequence.
GenBank	AC254608	1e-132	AC254608.1 Capsella rubella clone CAP16-D12, complete sequence.
GenBank	ATAC009991	1e-132	AC009991.5 Arabidopsis thaliana chromosome III BAC F9F8 genomic sequence, complete sequence.
GenBank	CP002686	1e-132	CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013587709.1	1e-124	PREDICTED: LOB domain-containing protein 21
Refseq	XP_013750153.1	1e-124	LOB domain-containing protein 21
Swissprot	Q9SRL8	1e-105	LBD21_ARATH; LOB domain-containing protein 21
TrEMBL	A0A0D3CLA0	1e-123	A0A0D3CLA0_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6FMH5	1e-123	A0A3P6FMH5_BRAOL; Uncharacterized protein
STRING	Bo5g136860.1	1e-124	(Brassica oleracea)

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	2e-92	LOB domain-containing protein 21

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]