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

Tp57577_TGAC_v2_mRNA27852

Organism

Trifolium pratense

Taxonomic ID

57577

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Trifolium

Family

LBD

Protein Properties

Length: 207aa MW: 22099.2 Da PI: 8.804

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Tp57577_TGAC_v2_mRNA27852	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	112.4	3.1e-35	24	111	1	87
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilkl 83 +C aCk+lrrkC+++C++apyf +e+ + +fa+vhk+FGasnv+kll +p ++r da+ sl+yeA+ar+rdP+yG+vg+i++l Tp57577_TGAC_v2_mRNA27852 24 PCGACKFLRRKCVSGCIFAPYFDSEHgTTHFAAVHKVFGASNVSKLLLGIPINRRLDAAVSLCYEAQARLRDPIYGCVGHIFAL 107 7*******************999979**************************************************** PP DUF260 84 qqql 87 qqq Tp57577_TGAC_v2_mRNA27852 108 QQQC 111 97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	20.676	23	124	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	2.7E-35	24	111	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 207 aa Download sequence Send to blast
MSLNSSGSGS NGGGSGSGGN SSSPCGACKF LRRKCVSGCI FAPYFDSEHG TTHFAAVHKV 60 FGASNVSKLL LGIPINRRLD AAVSLCYEAQ ARLRDPIYGC VGHIFALQQQ CFCGIQKRNK 120 KEGLGKDEKK KVLSLQAELS YMQSHINSSE LTQPPLPPPQ AAVAPAVFSF ADLPPPXXXX 180 FIGYATPEAQ YRPTSIFTCS WPNINH*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	7e-33	21	110	8	96	LOB family transfactor Ramosa2.1
5ly0_B	7e-33	21	110	8	96	LOB family transfactor Ramosa2.1
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Involved in the positive regulation of tracheary element (TE) differentiation. Involved in a positive feedback loop that maintains or promotes NAC030/VND7 expression that regulates TE differentiation-related genes (PubMed:19088331). Functions in the initiation and emergence of lateral roots, in conjunction with LBD16, downstream of ARF7 and ARF19 (PubMed:19717544, PubMed:23749813). Transcriptional activator that directly regulates EXPA14, a gene encoding a cell wall-loosening factor that promotes lateral root emergence. Activates EXPA14 by directly binding to a specific region of its promoter (PubMed:22974309). Transcriptional activator that directly regulates EXPA17, a gene encoding a cell wall-loosening factor that promotes lateral root emergence (PubMed:23872272). Acts downstream of the auxin influx carriers AUX1 and LAX1 in the regulation of lateral root initiation and development (PubMed:26059335). {ECO:0000269\|PubMed:19088331, ECO:0000269\|PubMed:19717544, ECO:0000269\|PubMed:22974309, ECO:0000269\|PubMed:23749813, ECO:0000269\|PubMed:23872272, ECO:0000269\|PubMed:26059335}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Tp57577_TGAC_v2_mRNA27852

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin. {ECO:0000269\|PubMed:15659631, ECO:0000269\|PubMed:19717544, ECO:0000269\|PubMed:23749813}.

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_003623721.1	2e-64	LOB domain-containing protein 18
Swissprot	O22131	6e-51	LBD18_ARATH; LOB domain-containing protein 18
Swissprot	O81322	3e-51	LBD31_ARATH; LOB domain-containing protein 31
TrEMBL	A0A396H1Z5	2e-63	A0A396H1Z5_MEDTR; Putative transcription factor AS2-LOB family
STRING	AES79939	6e-64	(Medicago truncatula)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1771	34	93

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G45420.1	3e-52	LOB domain-containing protein 18

Link Out ? help Back to Top
Phytozome	Tp57577_TGAC_v2_mRNA27852

Publications ? help Back to Top
Heyndrickx KS,Vandepoele K Systematic identification of functional plant modules through the integration of complementary data sources. Plant Physiol., 2012. 159(3): p. 884-901 [PMID:22589469] Lee HW, et al. Dimerization in LBD16 and LBD18 Transcription Factors Is Critical for Lateral Root Formation. Plant Physiol., 2017. 174(1): p. 301-311 [PMID:28336771] Pandey SK,Kim J Coiled-coil motif in LBD16 and LBD18 transcription factors are critical for dimerization and biological function in arabidopsis. Plant Signal Behav, 2018. 13(1): p. e1411450 [PMID:29227192] Pandey SK, et al. LBD18 uses a dual mode of a positive feedback loop to regulate ARF expression and transcriptional activity in Arabidopsis. Plant J., 2018. 95(2): p. 233-251 [PMID:29681137] Lee HW, et al. LBD16 and LBD18 acting downstream of ARF7 and ARF19 are involved in adventitious root formation in Arabidopsis. BMC Plant Biol., 2019. 19(1): p. 46 [PMID:30704405]