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

GSBRNA2T00029596001

Common Name

GSBRNA2T00029596001, LOC106419308, LOC106419309

Organism

Brassica napus

Taxonomic ID

3708

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: 184aa MW: 20557.2 Da PI: 5.9421

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00029596001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	116	2.3e-36	7	106	1	99
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleq 89 +C aCk+lrrkC+ dCv++pyf eq +++fa+vhk+FGasnv+k l +lp ++r++a+ ++ yeA r+ dPvyG+v++i++lqqq+++ GSBRNA2T00029596001 7 SCGACKFLRRKCNIDCVFSPYFSYEQaSSHFAAVHKVFGASNVSKHLLSLPLHQRSAAAITISYEALSRMCDPVYGCVSHIFALQQQVMT 96 6*********************9978********************************************************** PP DUF260 90 lkaelallke 99 l+ e++ l++ GSBRNA2T00029596001 97 LQDEIEFLGT 106 **998765 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	21.554	6	108	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	3.5E-34	7	103	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 184 aa Download sequence Send to blast
MAAHGSSCGA CKFLRRKCNI DCVFSPYFSY EQASSHFAAV HKVFGASNVS KHLLSLPLHQ 60 RSAAAITISY EALSRMCDPV YGCVSHIFAL QQQVMTLQDE IEFLGTHMAN LSNSSQSMSQ 120 PNDMPEFLNQ MTMDTTTGFI DQTVLNNDVG INCIEGFFTN PEEVLVNHPW FQNMDHYYYA 180 PQH*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	8e-33	5	108	9	111	LOB family transfactor Ramosa2.1
5ly0_B	8e-33	5	108	9	111	LOB family transfactor Ramosa2.1
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in roots. {ECO:0000269\|PubMed:12068116}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00029596001

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_013715523.1	1e-137	LOB domain-containing protein 33-like
Refseq	XP_013715524.1	1e-137	LOB domain-containing protein 33-like
Swissprot	Q9LHS8	1e-100	LBD33_ARATH; LOB domain-containing protein 33
TrEMBL	A0A078J759	1e-136	A0A078J759_BRANA; BnaA10g30420D protein
TrEMBL	A0A397XX20	1e-136	A0A397XX20_BRACM; Uncharacterized protein
STRING	Bra009161.1-P	1e-134	(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-103	LOB domain-containing protein 33

Link Out ? help Back to Top
Entrez Gene	106419308 \| 106419309

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] Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293]