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

NNU_018875-RA

Organism

Nelumbo nucifera

Taxonomic ID

4432

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; stem eudicotyledons; Proteales; Nelumbonaceae; Nelumbo

Family

LBD

Protein Properties

Length: 240aa MW: 26521.7 Da PI: 5.9137

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
NNU_018875-RA	genome	CAS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	125.5	2.6e-39	7	107	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaela 95 +C aCk+lrrkC+k+Cv+apyf++eq + +fa++hk+FGasnv+kll++lp ++r +a+ ++ yeA+ar++dP+yG+v++i++lqqq+ +l+a+la NNU_018875-RA 7 PCGACKFLRRKCVKGCVFAPYFCHEQgATHFAAIHKVFGASNVSKLLAHLPVTDRCEAAVTISYEAQARLQDPIYGCVSHIFALQQQVVNLQAQLA 102 7***********************89****************************************************************** PP DUF260 96 llkee 100 +lk++ NNU_018875-RA 103 SLKAQ 107 99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	21.988	6	108	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	2.7E-37	7	105	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 240 aa Download sequence Send to blast
MTGFGSPCGA CKFLRRKCVK GCVFAPYFCH EQGATHFAAI HKVFGASNVS KLLAHLPVTD 60 RCEAAVTISY EAQARLQDPI YGCVSHIFAL QQQVVNLQAQ LASLKAQAAQ NLVNGSTTAT 120 PQEDTKFYGK FPSYPQDVQA AGAGLFNLED SSRVVQQFHP NPANNNADST MYYNNGLMDM 180 NPNPMDYQNS VIPEETISYN SFEDPTQAMA SLDMQTNSRK WAFQDMEDLQ SVAFSYLQRT

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-34	3	101	7	104	LOB family transfactor Ramosa2.1
5ly0_B	1e-34	3	101	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}.

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010274825.1	0.0	PREDICTED: LOB domain-containing protein 29
Swissprot	Q5UG13	2e-72	LBD_ORYSJ; LOB domain-containing protein CRL1
TrEMBL	A0A1U8B251	0.0	A0A1U8B251_NELNU; LOB domain-containing protein 29
STRING	XP_010274825.1	0.0	(Nelumbo nucifera)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G58190.1	7e-56	lateral organ boundaries-domain 29

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]