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 | Glyma.03G161400.1.p | ||||||||
Common Name | GLYMA_03G161400, LOC100816433 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja
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Family | LBD | ||||||||
Protein Properties | Length: 214aa MW: 23651.7 Da PI: 7.4745 | ||||||||
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 | 129.8 | 1.2e-40 | 16 | 117 | 1 | 101 |
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleq 89 +C aCk+lrr+Ca+dC++apyf++eq p++fa++hk+FGasnv+kll ++p ++r +a+ +++yeA+ar+rdPvyG+v++i++lqqq+++ Glyma.03G161400.1.p 16 PCGACKFLRRRCASDCIFAPYFCSEQgPARFAAIHKVFGASNVSKLLLHIPAHDRCEAVVTITYEAQARIRDPVYGCVSHIFALQQQVAR 105 7*************************99************************************************************** PP DUF260 90 lkaelallkeel 101 l+a+l ++k++l Glyma.03G161400.1.p 106 LQAQLMQVKAQL 117 ******999875 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50891 | 23.348 | 15 | 117 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 7.1E-39 | 16 | 114 | 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: 214 aa Download sequence Send to blast |
MASASGNGVS NGSGSPCGAC KFLRRRCASD CIFAPYFCSE QGPARFAAIH KVFGASNVSK 60 LLLHIPAHDR CEAVVTITYE AQARIRDPVY GCVSHIFALQ QQVARLQAQL MQVKAQLTQN 120 LVESRNIENN HHLQGNNNNV TGQLMNHPFC PTYMNPISPQ SSLESIDHSS INDGMSMQDI 180 QSREDFQIQA KERPYNNNDL GELQELALRM MRN* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5ly0_A | 2e-38 | 9 | 117 | 4 | 111 | LOB family transfactor Ramosa2.1 |
5ly0_B | 2e-38 | 9 | 117 | 4 | 111 | LOB family transfactor Ramosa2.1 |
Search in ModeBase |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | DEVELOPMENTAL STAGE: During lateral root formation, expressed in the lateral root primordia, and the developing, emerged, and mature lateral roots. {ECO:0000269|PubMed:19717544}. | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in roots and faintly in shoots. {ECO:0000269|PubMed:12068116}. |
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 |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Glyma.03G161400.1.p |
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 | AP011817 | 1e-152 | AP011817.1 Glycine max DNA, BAC clone: WBb10K2, complete sequence. | |||
GenBank | AP011823 | 1e-152 | AP011823.1 Glycine max DNA, BAC clone: WBb55K17, complete sequence. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | NP_001340894.1 | 1e-159 | LBD domain-containing transcription factor | ||||
Refseq | XP_028225569.1 | 1e-159 | LOB domain-containing protein 16-like | ||||
Swissprot | Q9SLB7 | 8e-77 | LBD16_ARATH; LOB domain-containing protein 16 | ||||
TrEMBL | A0A445LCW9 | 1e-158 | A0A445LCW9_GLYSO; LOB domain-containing protein 16 | ||||
TrEMBL | I1JP22 | 1e-158 | I1JP22_SOYBN; Uncharacterized protein | ||||
STRING | GLYMA03G31830.1 | 1e-158 | (Glycine max) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Fabids | OGEF4509 | 33 | 58 | Representative plant | OGRP405 | 15 | 100 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT2G42430.1 | 2e-61 | lateral organ boundaries-domain 16 |
Link Out ? help Back to Top | |
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Phytozome | Glyma.03G161400.1.p |
Entrez Gene | 100816433 |