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 | RrC156_p3 | ||||||||
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: 245aa MW: 26415.6 Da PI: 7.8734 | ||||||||
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 | 122.7 | 2e-38 | 15 | 115 | 1 | 100 |
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelallke 99 +C aCk+lrrkCa+dC++apyf +eq +++fa++hk+FGasnv+kll ++p ++r +a+ +++yeA+ar++dPvyG+v++i++lqqq++ l+a++ ++k RrC156_p3 15 PCGACKFLRRKCASDCIFAPYFSSEQgAARFAAIHKVFGASNVSKLLLNVPIHDRYEAVVTIAYEAQARLHDPVYGCVSHIFALQQQVAYLQAQVMQMKV 114 7***********************9989*****************************************************************9988776 PP DUF260 100 e 100 + RrC156_p3 115 Q 115 5 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50891 | 22.8 | 14 | 116 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 7.3E-38 | 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: 245 aa Download sequence Send to blast |
MATSGNGTTA GVGSPCGACK FLRRKCASDC IFAPYFSSEQ GAARFAAIHK VFGASNVSKL 60 LLNVPIHDRY EAVVTIAYEA QARLHDPVYG CVSHIFALQQ QVAYLQAQVM QMKVQIGGHQ 120 TSAAGDLRNS SESTHQFMTW QQSSGSPIGS AYAIPYDHHH HPCYGHVNPN NPILQQSSPE 180 ESLSSTSSDV TTTANLRETH QTGAGVYGHG GLGFHEGYPS KKRPVSYCNS DLGELQALAL 240 RMMKN |
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-37 | 8 | 109 | 4 | 104 | LOB family transfactor Ramosa2.1 |
5ly0_B | 3e-37 | 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 |
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 -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_018438257.1 | 0.0 | PREDICTED: LOB domain-containing protein 16 | ||||
Swissprot | Q9SLB7 | 1e-158 | LBD16_ARATH; LOB domain-containing protein 16 | ||||
TrEMBL | D7LI59 | 1e-157 | D7LI59_ARALL; Uncharacterized protein | ||||
STRING | Bostr.25993s0538.1.p | 1e-160 | (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-136 | lateral organ boundaries-domain 16 |