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 | GSBRNA2T00006140001 | ||||||||
Common Name | GSBRNA2T00006140001 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
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Family | LBD | ||||||||
Protein Properties | Length: 252aa MW: 25888.1 Da PI: 8.2853 | ||||||||
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 | 126.5 | 1.2e-39 | 34 | 134 | 1 | 100 |
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleq 89 +C aCk+lrrkC+++C++apyf +eq ++ fa+vhk+FGasnv+kll ++p ++r da+ +++yeA+ar+rdP+yG+v+ i++lqqq+ + GSBRNA2T00006140001 34 PCGACKFLRRKCVPGCIFAPYFDSEQgSAYFAAVHKVFGASNVSKLLLHIPVHRRADAVVTICYEAQARIRDPIYGCVANIFALQQQVVN 123 7***********************998899************************************************************ PP DUF260 90 lkaelallkee 100 l+ae+++l+++ GSBRNA2T00006140001 124 LQAEVSYLQAH 134 ******99986 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50891 | 22.763 | 33 | 135 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 8.1E-39 | 34 | 132 | IPR004883 | Lateral organ boundaries, LOB |
Sequence ? help Back to Top |
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Protein Sequence Length: 252 aa Download sequence Send to blast |
MSGGGNTITS VGGGGCGGGS SSGGGGSSGG GGGPCGACKF LRRKCVPGCI FAPYFDSEQG 60 SAYFAAVHKV FGASNVSKLL LHIPVHRRAD AVVTICYEAQ ARIRDPIYGC VANIFALQQQ 120 VVNLQAEVSY LQAHLASLEL PQPQTRPPPL TQPQPLFFTP PPPLSITDLP ASVSPYDLAS 180 IVDPPTSWAT QQRRFVDPRN QYGGSSSSSS AAVGLGGGNS DLQALAHELL HRQGSPPPAA 240 TDGSPSRSMS R* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5ly0_A | 6e-39 | 27 | 135 | 4 | 111 | LOB family transfactor Ramosa2.1 |
5ly0_B | 6e-39 | 27 | 135 | 4 | 111 | LOB family transfactor Ramosa2.1 |
Search in ModeBase |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Bna.14394 | 0.0 | seed |
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, stems, leaves and flowers (PubMed:12068116, PubMed:24484953). Expressed in vascular tissues of hypocotyls, leaves, roots, developing floral organs and siliques (PubMed:19088331). {ECO:0000269|PubMed:12068116, ECO:0000269|PubMed:19088331, ECO:0000269|PubMed:24484953}. |
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}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | GSBRNA2T00006140001 |
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 | AC189498 | 0.0 | AC189498.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB086L12, complete sequence. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_013635009.1 | 0.0 | PREDICTED: LOB domain-containing protein 18 | ||||
Swissprot | O22131 | 1e-117 | LBD18_ARATH; LOB domain-containing protein 18 | ||||
TrEMBL | A0A078G1R3 | 1e-180 | A0A078G1R3_BRANA; BnaC04g04180D protein | ||||
TrEMBL | A0A3P6BHR9 | 1e-180 | A0A3P6BHR9_BRAOL; Uncharacterized protein | ||||
STRING | Bo4g024620.1 | 1e-180 | (Brassica oleracea) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM108 | 28 | 359 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT2G45420.1 | 1e-108 | LOB domain-containing protein 18 |