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PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Home TFext BLAST Prediction Download Help About Links PlantRegMap |
Transcription Factor Information
Basic Information? help Back to Top | |||||||||
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TF ID | Cla005993 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Citrullus
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Family | LBD | ||||||||
Protein Properties | Length: 235aa MW: 25391.6 Da PI: 7.5022 | ||||||||
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 | 124.4 | 5.5e-39 | 26 | 126 | 1 | 100 |
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelallke 99 +C aCk+lrrkC++dC++apyf++eq +++fa++hk+FGasnv+kll ++p ++r +a+ +++yeA+ar++dPvyG+v++i++lqqq++ l+++l ++k+ Cla005993 26 PCGACKFLRRKCVADCIFAPYFCSEQgAARFAAIHKVFGASNVSKLLLHVPVHDRCEAVVTIAYEAQARIHDPVYGCVAHIFALQQQVAYLQTQLMQAKA 125 7*************************89*******************************************************************99998 PP DUF260 100 e 100 + Cla005993 126 Q 126 7 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50891 | 22.678 | 25 | 127 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 1.3E-37 | 26 | 124 | 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: 235 aa Download sequence Send to blast |
MASSSSSSSA NTSVSGSGGG GGSGSPCGAC KFLRRKCVAD CIFAPYFCSE QGAARFAAIH 60 KVFGASNVSK LLLHVPVHDR CEAVVTIAYE AQARIHDPVY GCVAHIFALQ QQVAYLQTQL 120 MQAKAQLAQT LMDSGGNMEI QWTGNFNNNL FNGIPNNYQT QIMNNPAVSP QSSLESAANN 180 DEALLFINNQ NHLHESQSRS PEESQFLQPF PRKKLPSSHA DLGELQALAL RMMRN |
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 | 22 | 127 | 7 | 111 | LOB family transfactor Ramosa2.1 |
5ly0_B | 3e-37 | 22 | 127 | 7 | 111 | LOB family transfactor Ramosa2.1 |
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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 |
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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}. |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | LN681835 | 1e-118 | LN681835.1 Cucumis melo genomic scaffold, anchoredscaffold00064. | |||
GenBank | LN713258 | 1e-118 | LN713258.1 Cucumis melo genomic chromosome, chr_4. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_004152037.1 | 1e-132 | PREDICTED: LOB domain-containing protein 16 | ||||
Swissprot | Q9SLB7 | 1e-80 | LBD16_ARATH; LOB domain-containing protein 16 | ||||
TrEMBL | A0A0A0LAE8 | 1e-131 | A0A0A0LAE8_CUCSA; Uncharacterized protein | ||||
STRING | XP_004165236.1 | 1e-131 | (Cucumis sativus) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Fabids | OGEF4509 | 33 | 58 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT2G42430.1 | 3e-78 | lateral organ boundaries-domain 16 |