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

Rsa1.0_01609.1_g00006.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

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

Family

LBD

Protein Properties

Length: 261aa MW: 29747.1 Da PI: 5.4778

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_01609.1_g00006.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	126.8	9.9e-40	36	135	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqq 86 aCaaCk++rrkCa+dC lapyfp++++++f n+hklFG+sn++k++k+l++ ++++am +++++++ara+dP++G++++i+klq q Rsa1.0_01609.1_g00006.1 36 ACAACKYQRRKCAPDCLLAPYFPHDRHRQFLNAHKLFGVSNITKIIKDLSPPDKDAAMYTIMFQSDARANDPIEGCYSIIRKLQYQ 121 7*********************************************************************************** PP DUF260 87 leqlkaelallkee 100 +e +k+el+++ ++ Rsa1.0_01609.1_g00006.1 122 IEYSKNELEMVVQQ 135 ******999887 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	24.906	35	136	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	2.7E-36	36	132	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 261 aa Download sequence Send to blast
MPSGKPSSSV FSLHPKPTPL KPSSSTSNNN NTTNQACAAC KYQRRKCAPD CLLAPYFPHD 60 RHRQFLNAHK LFGVSNITKI IKDLSPPDKD AAMYTIMFQS DARANDPIEG CYSIIRKLQY 120 QIEYSKNELE MVVQQLAVFR NHHQEPHIQI QEPEDLSSFS SSCDLNNNNN SIPYSYPLHH 180 VQEPIQQQQE QQQYCSSGNF NGLQEDMWCL QLQDSSTTVN MKGGFIDECE DIKPVEEVSS 240 ETHEFEHHHD GLVEEPYIIS S

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	8e-26	37	136	12	111	LOB family transfactor Ramosa2.1
5ly0_B	8e-26	37	136	12	111	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_01609.1_g00006.1

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018434803.1	0.0	PREDICTED: LOB domain-containing protein 22-like
Refseq	XP_018438439.1	0.0	PREDICTED: LOB domain-containing protein 22-like
Swissprot	Q9LRW1	1e-143	LBD22_ARATH; LOB domain-containing protein 22
TrEMBL	A0A3P5ZSA6	1e-176	A0A3P5ZSA6_BRACM; Uncharacterized protein
STRING	Bra021513.1-P	1e-175	(Brassica rapa)

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-118	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]