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 | Rsa1.0_02876.1_g00007.1 | ||||||||
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; Raphanus
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Family | LBD | ||||||||
Protein Properties | Length: 246aa MW: 26677.6 Da PI: 8.0182 | ||||||||
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 | 122.2 | 2.7e-38 | 15 | 115 | 1 | 100 |
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqq 85 +C aCk+lrrkCa+dC++apyf +eq +++fa++hk+FGasnv+kll ++p ++r +a+ +++yeA+ar++dPvyG+v++i++lqq Rsa1.0_02876.1_g00007.1 15 PCGACKFLRRKCASDCIFAPYFSSEQgAARFAAIHKVFGASNVSKLLLNVPIHDRCEAVVTIAYEAQARLHDPVYGCVSHIFALQQ 100 7***********************9989********************************************************** PP DUF260 86 qleqlkaelallkee 100 q++ l+a++ ++k++ Rsa1.0_02876.1_g00007.1 101 QVAYLQAQVLQMKAQ 115 ********9988877 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50891 | 22.829 | 14 | 116 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 1.8E-37 | 15 | 112 | 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: 246 aa Download sequence Send to blast |
MATSGNSTAT GTGSPCGACK FLRRKCASDC IFAPYFSSEQ GAARFAAIHK VFGASNVSKL 60 LLNVPIHDRC EAVVTIAYEA QARLHDPVYG CVSHIFALQQ QVAYLQAQVL QMKAQISGHQ 120 TSAAGDLRNS SESNNQFTTW QQTTGSPFVS AYSTPYSHNH QPNYYGHVNP NNPVSPQSSL 180 EETFSNTSSD VTTTANFRET QQTGGGVYCH SGLGFHEGYP NKKRSVSYCN SDLGELQALA 240 LRMMKN |
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-36 | 8 | 109 | 4 | 104 | LOB family transfactor Ramosa2.1 |
5ly0_B | 3e-36 | 8 | 109 | 4 | 104 | 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 |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Rsa1.0_02876.1_g00007.1 |
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 | AB473851 | 0.0 | AB473851.1 Arabidopsis thaliana ASL18 mRNA for ASYMMETRIC LEAVES2-like 18 protein, complete cds. | |||
GenBank | AF345339 | 0.0 | AF345339.1 Arabidopsis thaliana MHK10.15/At2g42430 mRNA, complete cds. | |||
GenBank | AF410334 | 0.0 | AF410334.1 Arabidopsis thaliana At2g42430/MHK10.15 mRNA, complete cds. | |||
GenBank | AF447890 | 0.0 | AF447890.1 Arabidopsis thaliana LOB DOMAIN 16 (LBD16) mRNA, complete cds. | |||
GenBank | BT000866 | 0.0 | BT000866.1 Arabidopsis thaliana At2g42430/MHK10.15 mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_018482139.1 | 0.0 | PREDICTED: LOB domain-containing protein 16 | ||||
Swissprot | Q9SLB7 | 1e-163 | LBD16_ARATH; LOB domain-containing protein 16 | ||||
TrEMBL | D7LI59 | 1e-161 | D7LI59_ARALL; Uncharacterized protein | ||||
STRING | Bostr.25993s0538.1.p | 1e-164 | (Boechera stricta) |
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 | ||||
AT2G42430.1 | 1e-145 | lateral organ boundaries-domain 16 |