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 | Sopen09g027960.1 | ||||||||
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; Lycopersicon
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Family | LBD | ||||||||
Protein Properties | Length: 231aa MW: 25683.6 Da PI: 8.4748 | ||||||||
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 | 123 | 1.6e-38 | 10 | 110 | 1 | 100 |
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlka 92 +C aCk+lrrkCa dC++apyf++eq p++fa++hk+FGasnv+kll ++p +r +a+ +++yeA+ar++dPvyG+v++i +lqqq++ l+a Sopen09g027960.1 10 PCGACKFLRRKCAVDCIFAPYFCSEQgPARFAAIHKVFGASNVSKLLLHVPVPDRCEAVFTIAYEAQARIKDPVYGCVAHIYSLQQQVAYLQA 102 7*************************99***************************************************************** PP DUF260 93 elallkee 100 +l ++k++ Sopen09g027960.1 103 QLMQVKTQ 110 **999987 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50891 | 22.781 | 9 | 111 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 3.9E-37 | 10 | 108 | IPR004883 | Lateral organ boundaries, LOB |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0010311 | Biological Process | lateral root formation | ||||
GO:0005634 | Cellular Component | nucleus |
Sequence ? help Back to Top |
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Protein Sequence Length: 231 aa Download sequence Send to blast |
MSSTGTGSSP CGACKFLRRK CAVDCIFAPY FCSEQGPARF AAIHKVFGAS NVSKLLLHVP 60 VPDRCEAVFT IAYEAQARIK DPVYGCVAHI YSLQQQVAYL QAQLMQVKTQ LAQSLLNNSR 120 NSENFYPHQW SNNNMTSSFQ PSNNNNNNPT HTMNSNSSPQ SSLESIDHYS DGINNNNNNM 180 PEIQSRLDQV FYHQAAYTSN SNSSSNSNSR KRPSQTELGE LQALALRMMK N |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5ly0_A | 3e-35 | 3 | 111 | 4 | 111 | LOB family transfactor Ramosa2.1 |
5ly0_B | 3e-35 | 3 | 111 | 4 | 111 | LOB family transfactor Ramosa2.1 |
Search in ModeBase |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcriptional activator (PubMed:19717544, PubMed:22974309). Involved in lateral root formation. Regulated by the transcriptional activators ARF7 and ARF19 (PubMed:17259263). Functions in the initiation and emergence of lateral roots, in conjunction with LBD18, downstream of ARF7 and ARF19 (PubMed:19717544, PubMed:23749813). Acts downstream of the auxin influx carriers AUX1 and LAX1 in the regulation of lateral root initiation and development (PubMed:26059335). {ECO:0000269|PubMed:17259263, ECO:0000269|PubMed:19717544, ECO:0000269|PubMed:22974309, ECO:0000269|PubMed:23749813, ECO:0000269|PubMed:26059335}. |
Binding Motif ? help Back to Top | |||
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Motif ID | Method | Source | Motif file |
MP00309 | DAP | Transfer from AT2G42430 | Download |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: By auxin. {ECO:0000269|PubMed:15659631, ECO:0000269|PubMed:17259263, ECO:0000269|PubMed:23749813}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | Retrieve |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | HG975448 | 0.0 | HG975448.1 Solanum pennellii chromosome ch09, complete genome. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_015087553.1 | 1e-172 | LOB domain-containing protein 16-like | ||||
Swissprot | Q9SLB7 | 8e-70 | LBD16_ARATH; LOB domain-containing protein 16 | ||||
TrEMBL | M1AL22 | 1e-142 | M1AL22_SOLTU; Uncharacterized protein | ||||
STRING | Solyc09g066260.2.1 | 1e-149 | (Solanum lycopersicum) |
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 | ||||
AT2G42430.1 | 2e-51 | lateral organ boundaries-domain 16 |