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 | Sobic.001G503000.1.p | ||||||||
Common Name | Sb01g046990, SORBIDRAFT_01g046990 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum
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Family | LBD | ||||||||
Protein Properties | Length: 246aa MW: 25678.4 Da PI: 5.9595 | ||||||||
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 | 127.7 | 5.5e-40 | 7 | 107 | 1 | 100 |
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqle 88 +C aCk+lrrkC+++Cv+apyf++eq +++fa++hk+FGasnv+kll++lp +r++a+ ++ yeA+ar+rdP+yG+v++i++lqqq++ Sobic.001G503000.1.p 7 PCGACKFLRRKCVRGCVFAPYFCHEQgAAHFAAIHKVFGASNVSKLLAHLPLADRPEAAVTISYEAQARLRDPIYGCVAHIFALQQQVM 95 7*************************89************************************************************* PP DUF260 89 qlkaelallkee 100 +l+a+la+lk++ Sobic.001G503000.1.p 96 TLQAQLASLKAQ 107 *******99987 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50891 | 22.574 | 6 | 108 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 6.3E-38 | 7 | 105 | IPR004883 | Lateral organ boundaries, LOB |
Sequence ? help Back to Top |
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Protein Sequence Length: 246 aa Download sequence Send to blast |
MTGFGSPCGA CKFLRRKCVR GCVFAPYFCH EQGAAHFAAI HKVFGASNVS KLLAHLPLAD 60 RPEAAVTISY EAQARLRDPI YGCVAHIFAL QQQVMTLQAQ LASLKAQAAQ GQQGVHEDAK 120 GYVGSAAAEQ LGYGYPWCNG NGGVAAAGTV GAPAAQLAGA YGNGGHESLT ALLGSSDYMQ 180 QSLYHAFEHA GADDDDGRQG NDAFEAAAES SSFGAEESGG WRSSSGYQDC EDLQSVAYAY 240 LNHRS* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5ly0_A | 7e-35 | 3 | 101 | 7 | 104 | LOB family transfactor Ramosa2.1 |
5ly0_B | 7e-35 | 3 | 101 | 7 | 104 | LOB family transfactor Ramosa2.1 |
Search in ModeBase |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in unelongating basal internodes, at the base of shoot in parenchyma cells adjacent to the peripheral vascular cylinder of the stem, and root pericycle cells (PubMed:15829602). Expressed in lateral and adventitious root primordia, tiller primordia, vascular tissues, scutellum, and young pedicels (PubMed:15960615). {ECO:0000269|PubMed:15829602, ECO:0000269|PubMed:15960615}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Acts as positive regulator of adventitious (crown) root formation by promoting its initiation (PubMed:15829602, PubMed:15960615). Acts as positive regulator of lateral root formation. Regulated by the auxin response factor and transcriptional activator ARF23/ARF1 (PubMed:15829602). Involved in auxin-mediated cell dedifferentiation, and may promote the initial cell division in the pericycle cells adjacent to the peripheral vascular cylinder at the base of the stem (PubMed:15960615). May act upstream of the gene regulatory network controlling adventitious root (crown) development (PubMed:21806801). {ECO:0000269|PubMed:15829602, ECO:0000269|PubMed:15960615, ECO:0000269|PubMed:21806801}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Sobic.001G503000.1.p |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: Induced by auxin (PubMed:15829602, PubMed:15960615). Induced by ethylene (PubMed:15960615). {ECO:0000269|PubMed:15829602, ECO:0000269|PubMed:15960615}. |
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 | EF051732 | 0.0 | EF051732.1 Zea mays rootless concerning crown and seminal lateral roots (rtcs) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_002465851.1 | 1e-179 | LOB domain-containing protein 6 | ||||
Swissprot | Q5UG13 | 1e-110 | LBD_ORYSJ; LOB domain-containing protein CRL1 | ||||
TrEMBL | C5WXW9 | 1e-178 | C5WXW9_SORBI; Uncharacterized protein | ||||
STRING | Sb01g046990.1 | 1e-179 | (Sorghum bicolor) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Monocots | OGMP2501 | 38 | 93 | Representative plant | OGRP405 | 15 | 100 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT2G42440.1 | 1e-56 | LBD family protein |
Link Out ? help Back to Top | |
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Phytozome | Sobic.001G503000.1.p |
Entrez Gene | 8085476 |
Publications ? help Back to Top | |||
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