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

Itr_sc000061.1_g00017.1

Organism

Ipomoea trifida

Taxonomic ID

35884

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea

Family

LBD

Protein Properties

Length: 225aa MW: 24416.3 Da PI: 6.9773

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Itr_sc000061.1_g00017.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	122.6	2.1e-38	7	105	1	98
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqq 85 +C aCk+lrrkC+k+Cv+apyf++eq +++fa++hk+FGasnv kll++lp ++r +a+ ++ yeA+ar++dP+yG+v++i++lqq Itr_sc000061.1_g00017.1 7 PCGACKFLRRKCVKGCVFAPYFCHEQgAAHFAAIHKVFGASNVAKLLAHLPVSDRCEAAVTISYEAQARLQDPIYGCVSHIFALQQ 92 7***********************89****************************************************** PP DUF260 86 qleqlkaelallk 98 q+ l+++l +lk Itr_sc000061.1_g00017.1 93 QVVDLQEQLISLK 105 *****997766 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	21.96	6	108	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	3.8E-37	7	105	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 225 aa Download sequence Send to blast
MTGSGSPCGA CKFLRRKCVK GCVFAPYFCH EQGAAHFAAI HKVFGASNVA KLLAHLPVSD 60 RCEAAVTISY EAQARLQDPI YGCVSHIFAL QQQVVDLQEQ LISLKKLAAN NQSNLNDSMA 120 SAANPNDRSN NITIPSSLQD VHNWFHYSQN PTAMAAAEFY PAASSNACNN GGNLQPAAIY 180 YSNINENPIY MGTNINISNN NYSYADASSS SMDDLQSAAF RFLHH

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-35	3	101	7	104	LOB family transfactor Ramosa2.1
5ly0_B	1e-35	3	101	7	104	LOB family transfactor Ramosa2.1
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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}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin. {ECO:0000269\|PubMed:15659631, ECO:0000269\|PubMed:17259263}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019178786.1	1e-126	PREDICTED: LOB domain-containing protein 29-like
Swissprot	Q9M2J7	7e-66	LBD29_ARATH; LOB domain-containing protein 29
TrEMBL	A0A1R3I7B6	4e-83	A0A1R3I7B6_COCAP; Uncharacterized protein
STRING	XP_006480093.1	6e-81	(Citrus sinensis)
STRING	XP_006443870.1	6e-81	(Citrus clementina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA8446	22	30

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G58190.1	1e-58	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]