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

MLOC_52276.1

Organism

Hordeum vulgare

Taxonomic ID

4513

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Triticodae; Triticeae; Hordeinae; Hordeum

Family

LBD

Protein Properties

Length: 161aa MW: 16872.2 Da PI: 7.4731

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
MLOC_52276.1	genome	IBSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	110.9	9e-35	27	119	1	92
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlka 92 +C aCk+lrrkC+++Cv+ap+f++eq +++fa++hk+FGasn +kll +lp ++r++a+ ++ yeA+ar++dPvyG+v++i++l+ ++ l++ MLOC_52276.1 27 PCGACKFLRRKCVSGCVFAPHFCHEQgAAHFAAIHKVFGASNASKLLMSLPATDRREAAVTISYEAQARLHDPVYGCVAHIFALTCTVDGLHS 119 7***********************89******************************************************999887765 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	19.722	26	128	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	3.3E-33	27	119	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 161 aa Download sequence Send to blast
MELGTGLLDN GINIDQAPEA MTGFSSPCGA CKFLRRKCVS GCVFAPHFCH EQGAAHFAAI 60 HKVFGASNAS KLLMSLPATD RREAAVTISY EAQARLHDPV YGCVAHIFAL TCTVDGLHSA 120 VRRGISSPID QPVTSRTPAI AGGERDSTGR PNGSMGLAMG D

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	8e-30	23	121	7	104	LOB family transfactor Ramosa2.1
5ly0_B	8e-30	23	121	7	104	LOB family transfactor Ramosa2.1
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Acts as positive regulator of adventitious (crown) root formation by promoting its initiation (PubMed:15829602, PubMed:15960615). Acts as positive regulator of lateral root formation. Regulated by the auxin response factor and transcriptional activator ARF23/ARF1 (PubMed:15829602). Involved in auxin-mediated cell dedifferentiation, and may promote the initial cell division in the pericycle cells adjacent to the peripheral vascular cylinder at the base of the stem (PubMed:15960615). May act upstream of the gene regulatory network controlling adventitious root (crown) development (PubMed:21806801). {ECO:0000269\|PubMed:15829602, ECO:0000269\|PubMed:15960615, ECO:0000269\|PubMed:21806801}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	MLOC_52276.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced by auxin (PubMed:15829602, PubMed:15960615). Induced by ethylene (PubMed:15960615). {ECO:0000269\|PubMed:15829602, ECO:0000269\|PubMed:15960615}.

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_020182029.1	8e-60	LOB domain-containing protein 14-like
Swissprot	Q5UG13	3e-52	LBD_ORYSJ; LOB domain-containing protein CRL1
TrEMBL	A0A287MWE4	1e-111	A0A287MWE4_HORVV; Uncharacterized protein
STRING	MLOC_52276.7	4e-68	(Hordeum vulgare)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G42440.1	1e-52	LBD family protein

Publications ? help Back to Top
Coudert Y,Périn C,Courtois B,Khong NG,Gantet P Genetic control of root development in rice, the model cereal. Trends Plant Sci., 2010. 15(4): p. 219-26 [PMID:20153971] Kitomi Y, et al. The auxin responsive AP2/ERF transcription factor CROWN ROOTLESS5 is involved in crown root initiation in rice through the induction of OsRR1, a type-A response regulator of cytokinin signaling. Plant J., 2011. 67(3): p. 472-84 [PMID:21481033] Coudert Y, et al. Transcript profiling of crown rootless1 mutant stem base reveals new elements associated with crown root development in rice. BMC Genomics, 2011. 12: p. 387 [PMID:21806801]