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_00538.1_g00009.1

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: 185aa MW: 20809.5 Da PI: 6.4959

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00538.1_g00009.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	115.3	4e-36	7	106	1	99
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqq 85 +C aCk+lrrkC+ dCv++pyf eq +++fa+vhk+FGasnv+k l +lp ++r++a+ ++ yeA r dPvyG+v++i++lqq Rsa1.0_00538.1_g00009.1 7 SCGACKFLRRKCNIDCVFSPYFSYEQaSSHFAAVHKVFGASNVSKHLLSLPLHQRSAAAITISYEALSRKCDPVYGCVAHIFALQQ 92 6*********************9978****************************************************** PP DUF260 86 qleqlkaelallke 99 q+++l++e++ l++ Rsa1.0_00538.1_g00009.1 93 QVMTLQEEIEFLGT 106 ******998765 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	21.61	6	108	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	4.2E-34	7	103	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 185 aa Download sequence Send to blast
MAGHGSSCGA CKFLRRKCNI DCVFSPYFSY EQASSHFAAV HKVFGASNVS KHLLSLPLHQ 60 RSAAAITISY EALSRKCDPV YGCVAHIFAL QQQVMTLQEE IEFLGTHMAN LSNTTQSRSQ 120 PTDMPEFLNQ MTMDTTTGFI DETVLNNDVG RNCIEGFFTN PEGVLVNHPW FQNMDHYYYA 180 PQHQM

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	7e-33	3	108	7	111	LOB family transfactor Ramosa2.1
5ly0_B	7e-33	3	108	7	111	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_00538.1_g00009.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin. {ECO:0000269\|PubMed:17259263}.

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_018444637.1	1e-140	PREDICTED: LOB domain-containing protein 33
Swissprot	Q9LHS8	1e-100	LBD33_ARATH; LOB domain-containing protein 33
TrEMBL	A0A291LR26	1e-131	A0A291LR26_BRARR; Transcription factor LBD33
TrEMBL	M4CY64	1e-131	M4CY64_BRARP; Uncharacterized protein
STRING	Bra009161.1-P	1e-132	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM108	28	359

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G06080.1	1e-102	LOB domain-containing protein 33

Publications ? help Back to Top
Bargmann BO,Birnbaum KD,Brenner ED An undergraduate study of two transcription factors that promote lateral root formation. Biochem Mol Biol Educ, 2014 May-Jun. 42(3): p. 237-45 [PMID:24615800]