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_009146754.1

Organism

Brassica rapa

Taxonomic ID

3711

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: 205aa MW: 22785.2 Da PI: 8.4864

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009146754.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	123.9	8.4e-39	44	143	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_009146754.1 44 SCAACKLLKRRCTPTCIFAPHFRSSDQITFAKVHKVFGASNVSKLLSEVPEEQRQETVNSLAYEADVRLKDPVYGCIGAIASLQKKMLELQHDIA 138 6*********************************************************************************************9 PP DUF260 96 llkee 100 +++++ XP_009146754.1 139 VARNR 143 99876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	24.5	43	144	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	4.0E-38	44	141	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 205 aa Download sequence Send to blast
MLIKNPIIYK GNHQINLTIN HSLTFYHPKR RFEMRGHEPR SSSSCAACKL LKRRCTPTCI 60 FAPHFRSSDQ ITFAKVHKVF GASNVSKLLS EVPEEQRQET VNSLAYEADV RLKDPVYGCI 120 GAIASLQKKM LELQHDIAVA RNRLLAHNAA GGVNNNNSHL LVSPLVDDAS QLAAFLDLVP 180 YSDLMLLDGS GLDAYLFDIG QPPFV

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	3e-39	39	153	6	122	LOB family transfactor Ramosa2.1
5ly0_B	3e-39	39	153	6	122	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009146754.1

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	AC254608	1e-135	AC254608.1 Capsella rubella clone CAP16-D12, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009146754.1	1e-152	PREDICTED: LOB domain-containing protein 21
Swissprot	Q9SRL8	1e-101	LBD21_ARATH; LOB domain-containing protein 21
TrEMBL	A0A291LR03	1e-150	A0A291LR03_BRARR; Transcription factor LBD21
STRING	Bra034867.1-P	1e-124	(Brassica rapa)

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	8e-91	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]