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_009146439.1

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: 257aa MW: 29463.9 Da PI: 5.8355

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009146439.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	125.7	2.3e-39	31	130	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaela 95 aCaaCk++rrkCa+dC lapyfp++++++f n+hklFG+sn++k++k+l++ e+++am++++++++ara+dP++G++++i++lq ++e k+el+ XP_009146439.1 31 ACAACKYQRRKCAPDCLLAPYFPHDRHRQFLNAHKLFGVSNITKIIKDLSPPEKDAAMHTIMFQSDARANDPIEGCYSIIRRLQYEIEYNKNELD 125 7*********************************************************************************************9 PP DUF260 96 llkee 100 ++ ++ XP_009146439.1 126 MVLHQ 130 88776 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	24.897	30	131	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	4.6E-36	31	127	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 257 aa Download sequence Send to blast
MPSNKPSSIF PLHHKPTPLK PSSSTNTTNQ ACAACKYQRR KCAPDCLLAP YFPHDRHRQF 60 LNAHKLFGVS NITKIIKDLS PPEKDAAMHT IMFQSDARAN DPIEGCYSII RRLQYEIEYN 120 KNELDMVLHQ LAVFRDRAHN HYQEPHMQMQ EPEDLSSSCD LNNNNVIPYS YPLHHVQEPN 180 QQQQQYCSSG NFNGLQEDMW CLQLQESSTT VNIKGGFIDE CEDVKAVEEI SNEFEHHDGF 240 VEDSKLDLPS AQFIVSS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	7e-27	22	131	2	111	LOB family transfactor Ramosa2.1
5ly0_B	7e-27	22	131	2	111	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009146439.1

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	AC237328	0.0	AC237328.1 Arabidopsis lyrata clone JGIFAFI-41L7, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009146439.1	0.0	PREDICTED: LOB domain-containing protein 22
Swissprot	Q9LRW1	1e-148	LBD22_ARATH; LOB domain-containing protein 22
TrEMBL	A0A397ZE15	0.0	A0A397ZE15_BRACM; Uncharacterized protein
STRING	Bo5g132010.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM6498	26	45

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G13850.1	1e-144	LOB domain-containing protein 22

Publications ? help Back to Top
Kim M,Kim MJ,Pandey S,Kim J Expression and Protein Interaction Analyses Reveal Combinatorial Interactions of LBD Transcription Factors During Arabidopsis Pollen Development. Plant Cell Physiol., 2016. 57(11): p. 2291-2299 [PMID:27519310]