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_013635452.1

Organism

Brassica oleracea

Taxonomic ID

3712

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: 217aa MW: 24090.7 Da PI: 6.8224

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013635452.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	121.4	4.8e-38	7	107	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkael 94 +C aCk+lrrkCa++Cv+apyf+++q + +fa++hk+FGasn +k+l++lp ++r +a+ ++ yeA+ar++dP+yG+v++i++lqqq+ +l+a+l XP_013635452.1 7 PCGACKFLRRKCANGCVFAPYFCHDQgAPHFAAIHKVFGASNASKILSNLPISDRCEAAITISYEAQARLQDPIYGCVSHIFALQQQVVNLQAQL 101 7***********************889************************************************************** PP DUF260 95 allkee 100 + lk++ XP_013635452.1 102 EILKQQ 107 9997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	21.913	6	108	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	4.3E-36	7	105	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 217 aa Download sequence Send to blast
MSSSGSPCGA CKFLRRKCAN GCVFAPYFCH DQGAPHFAAI HKVFGASNAS KILSNLPISD 60 RCEAAITISY EAQARLQDPI YGCVSHIFAL QQQVVNLQAQ LEILKQQAAQ SIMFADSPSS 120 VNPNSYYGDN TKTSYHHDHH HEHRNIHHHD ETRLVYQTGS SWMVQHGDAT VNSYPTGNCS 180 GFGEVSIYPD LEQHLNSFNQ DHLKELQSAN FGYISFS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	6e-33	4	102	8	105	LOB family transfactor Ramosa2.1
5ly0_B	6e-33	4	102	8	105	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}.

Functional Description ? help Back to Top
Source	Description
UniProt	Involved in lateral root formation. Regulated by the transcriptional activators ARF7 and ARF19. {ECO:0000269\|PubMed:17259263}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_013635452.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin. {ECO:0000269\|PubMed:15659631, 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_013635452.1	1e-163	PREDICTED: LOB domain-containing protein 29
Swissprot	Q9M2J7	1e-127	LBD29_ARATH; LOB domain-containing protein 29
TrEMBL	A0A0D3BX42	1e-161	A0A0D3BX42_BRAOL; Uncharacterized protein
STRING	Bo4g108600.1	1e-162	(Brassica oleracea)

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
AT3G58190.1	1e-112	lateral organ boundaries-domain 29

Publications ? help Back to Top
Gupta A,Singh M,Laxmi A Interaction between glucose and brassinosteroid during the regulation of lateral root development in Arabidopsis. Plant Physiol., 2015. 168(1): p. 307-20 [PMID:25810094] Porco S, et al. Lateral root emergence in Arabidopsis is dependent on transcription factor LBD29 regulation of auxin influx carrier LAX3. Development, 2016. 143(18): p. 3340-9 [PMID:27578783] Lee K,Seo PJ High-temperature promotion of callus formation requires the BIN2-ARF-LBD axis in Arabidopsis. Planta, 2017. 246(4): p. 797-802 [PMID:28766014] Xu C,Cao H,Xu E,Zhang S,Hu Y Genome-Wide Identification of Arabidopsis LBD29 Target Genes Reveals the Molecular Events behind Auxin-Induced Cell Reprogramming during Callus Formation. Plant Cell Physiol., 2018. 59(4): p. 744-755 [PMID:29121271] Xu C, et al. Control of auxin-induced callus formation by bZIP59-LBD complex in Arabidopsis regeneration. Nat Plants, 2018. 4(2): p. 108-115 [PMID:29358751]