PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Transcription Factor Information
Basic Information? help Back to Top | |||||||||
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TF ID | Sme2.5_09999.1_g00001.1 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum
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Family | LBD | ||||||||
Protein Properties | Length: 275aa MW: 28090.9 Da PI: 7.7571 | ||||||||
Description | LBD family protein | ||||||||
Gene Model |
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Signature Domain? help Back to Top | |||||||
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No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | DUF260 | 126.3 | 1.4e-39 | 46 | 146 | 1 | 100 |
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqq 85 +C aCk+lrrkC+++C++apyf +eq +++fa+vhk+FGasnv+kll ++p ++r da++++++eA+ar+rdPvyG+v++i +lqq Sme2.5_09999.1_g00001.1 46 PCGACKFLRRKCVAGCIFAPYFDSEQgAAHFAAVHKVFGASNVSKLLLHIPVHKRLDAVATICFEAQARLRDPVYGCVAHIINLQQ 131 7***********************9989********************************************************** PP DUF260 86 qleqlkaelallkee 100 q+ +l+ael +l+++ Sme2.5_09999.1_g00001.1 132 QVVNLQAELTYLQAH 146 **********99876 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50891 | 22.791 | 45 | 147 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 1.6E-38 | 46 | 144 | IPR004883 | Lateral organ boundaries, LOB |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0010089 | Biological Process | xylem development | ||||
GO:0010311 | Biological Process | lateral root formation | ||||
GO:0005634 | Cellular Component | nucleus |
Sequence ? help Back to Top |
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Protein Sequence Length: 275 aa Download sequence Send to blast |
MSSNNPSSST GGGICGGTSG STSSGGGGCG GGGGGGGGGG GGGGGPCGAC KFLRRKCVAG 60 CIFAPYFDSE QGAAHFAAVH KVFGASNVSK LLLHIPVHKR LDAVATICFE AQARLRDPVY 120 GCVAHIINLQ QQVVNLQAEL TYLQAHLATL ELPTPPPLPP PPPPQQPQTM LQQPSLSIAD 180 LPTAGPSLPA AYDLSSLFDP MVQPSWAMQQ PRPPSPLPLD PRHHFSGGAR ATVDMPPSTG 240 GGGGDLQELA RELLHRHGSP TLPCRESPAL PPQTK |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5ly0_A | 4e-36 | 42 | 140 | 7 | 104 | LOB family transfactor Ramosa2.1 |
5ly0_B | 4e-36 | 42 | 140 | 7 | 104 | LOB family transfactor Ramosa2.1 |
Search in ModeBase |
Functional Description ? help Back to Top | ||||||
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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}. |
Binding Motif ? help Back to Top | |||
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Motif ID | Method | Source | Motif file |
MP00314 | DAP | Transfer from AT2G45420 | Download |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: By auxin. {ECO:0000269|PubMed:15659631, ECO:0000269|PubMed:19717544, ECO:0000269|PubMed:23749813}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | - | Retrieve |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | HG975513 | 1e-139 | HG975513.1 Solanum lycopersicum chromosome ch01, complete genome. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_009604912.1 | 1e-121 | PREDICTED: LOB domain-containing protein 30-like | ||||
Refseq | XP_016514578.1 | 1e-121 | PREDICTED: LOB domain-containing protein 30-like | ||||
Swissprot | O22131 | 4e-79 | LBD18_ARATH; LOB domain-containing protein 18 | ||||
TrEMBL | A0A1S4DME9 | 1e-120 | A0A1S4DME9_TOBAC; LOB domain-containing protein 30-like | ||||
STRING | XP_009604912.1 | 1e-120 | (Nicotiana tomentosiformis) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Asterids | OGEA43 | 24 | 669 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT4G00220.1 | 4e-79 | LBD family protein |
Publications ? help Back to Top | |||
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