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

RrC8434_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

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: 29740 Da PI: 5.4778

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC8434_p1	genome	MSU	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 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelallke 99 aCaaCk++rrkCa+dC lapyfp++++++f n+hklFG+sn++k++k+l++ ++++am +++++++ara+dP++G++++i+klq q+e +k+el+++ + RrC8434_p1 36 ACAACKYQRRKCAPDCLLAPYFPHDRHRQFLNAHKLFGVSNITKIIKDLSPPDKDAAMYTIMFQSDARANDPIEGCYSIIRKLQYQIEYSKNELEMVVQ 134 7*********************************************************************************************99988 PP DUF260 100 e 100 + RrC8434_p1 135 Q 135 7 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 SSCDLNNNSN SIPYSYPLHH 180 VQEPIQQQQE QQQYCSSGNF NGLQEDMWCL QLQDSSTTVN MKGGFIDECE DVKPVEEVSS 240 ETHEFEHHHD GFVEEPYIIS S

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	9e-26	37	136	12	111	LOB family transfactor Ramosa2.1
5ly0_B	9e-26	37	136	12	111	LOB family transfactor Ramosa2.1
Search in ModeBase

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-144	LBD22_ARATH; LOB domain-containing protein 22
TrEMBL	A0A078HKU6	1e-177	A0A078HKU6_BRANA; BnaA01g29810D protein
TrEMBL	A0A398AUD4	1e-177	A0A398AUD4_BRACM; Uncharacterized protein
TrEMBL	A0A3P5ZSA6	1e-177	A0A3P5ZSA6_BRACM; Uncharacterized protein
STRING	Bra021513.1-P	1e-177	(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-119	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]