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

Aco010448.1

Organism

Ananas comosus

Taxonomic ID

4615

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Bromeliaceae; Ananas

Family

LBD

Protein Properties

Length: 229aa MW: 25011.6 Da PI: 6.4974

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Aco010448.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	127	8.8e-40	7	107	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelall 97 +C aCk+lrrkC+k+Cv+apyf++eq + +fa++hk+FGasnv+kll +lp ++r++a+ ++ yeA+ar++dP+yG+v++i++lqqq+ +l+a+la+l Aco010448.1 7 PCGACKFLRRKCVKGCVFAPYFCHEQgATHFAAIHKVFGASNVSKLLMHLPVSDRSEAAVTISYEAQARLQDPIYGCVAHIFALQQQVVNLQAQLASL 104 7***********************89******************************************************************99 PP DUF260 98 kee 100 k++ Aco010448.1 105 KAQ 107 987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	22.205	6	108	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	7.2E-38	7	105	IPR004883	Lateral organ boundaries, LOB

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010311	Biological Process	lateral root formation
GO:0005634	Cellular Component	nucleus

Sequence ? help Back to Top
Protein Sequence Length: 229 aa Download sequence Send to blast
MTGFGSPCGA CKFLRRKCVK GCVFAPYFCH EQGATHFAAI HKVFGASNVS KLLMHLPVSD 60 RSEAAVTISY EAQARLQDPI YGCVAHIFAL QQQVVNLQAQ LASLKAQAAQ GGHQNGPTNT 120 STQEYKPFNK ASTYQQDGPF LFTNGDGKLT PPFFSNMSID STPTYANYYS NGQFESNSAQ 180 SSHGNYGVNC DTNEEHTSFG DEDDSWRSSG FHDMEDLQSV AYAYLHRS*

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	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}.

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_020085396.1	1e-173	LOB domain-containing protein 29-like
Swissprot	Q5UG13	1e-75	LBD_ORYSJ; LOB domain-containing protein CRL1
TrEMBL	A0A199VG68	1e-171	A0A199VG68_ANACO; LOB domain-containing protein 29 (Fragment)
STRING	XP_008775957.1	1e-96	(Phoenix dactylifera)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP2501	38	93

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G42440.1	9e-54	LBD family protein

Link Out ? help Back to Top
Phytozome	Aco010448.1

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]