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.001G437300.2.p | ||||||||
Common Name | Sb01g041130, SORBIDRAFT_01g041130 | ||||||||
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: 25349.7 Da PI: 8.4046 | ||||||||
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 | 128.7 | 2.6e-40 | 39 | 139 | 1 | 100 |
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqle 88 +C aCk+lrrkC+++C++apyf +eq +++fa+vhk+FGasnv+kll ++p ++r da+ +++yeA+ar+rdPvyG+v++i++lqqq+ Sobic.001G437300.2.p 39 PCGACKFLRRKCVSGCIFAPYFDSEQgAAHFAAVHKVFGASNVSKLLLQIPAHKRLDAVVTICYEAQARLRDPVYGCVAHIFALQQQVV 127 7***********************9989************************************************************* PP DUF260 89 qlkaelallkee 100 +l+ael +l+++ Sobic.001G437300.2.p 128 NLQAELTYLQAH 139 *******99876 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50891 | 23.046 | 38 | 140 | IPR004883 | Lateral organ boundaries, LOB |
Pfam | PF03195 | 1.5E-39 | 39 | 137 | IPR004883 | Lateral organ boundaries, LOB |
Sequence ? help Back to Top |
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Protein Sequence Length: 246 aa Download sequence Send to blast |
MSAGGGTSTL GGGGPSGSGA SGGPGPGGSG GGGGGGGGPC GACKFLRRKC VSGCIFAPYF 60 DSEQGAAHFA AVHKVFGASN VSKLLLQIPA HKRLDAVVTI CYEAQARLRD PVYGCVAHIF 120 ALQQQVVNLQ AELTYLQAHL ATLELPSPPP LPAPPQMPLP GAFSISDLPS STSVPTTVDL 180 SALFDPPPQQ PQWAVQAAQP HHHHHHHQQP QQQQHHQLRQ PAPYGAPVRP GGVKLEQPPP 240 PPHSR* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5ly0_A | 4e-37 | 35 | 133 | 7 | 104 | LOB family transfactor Ramosa2.1 |
5ly0_B | 4e-37 | 35 | 133 | 7 | 104 | LOB family transfactor Ramosa2.1 |
Search in ModeBase |
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 | Sobic.001G437300.2.p |
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 | BT036180 | 0.0 | BT036180.1 Zea mays full-length cDNA clone ZM_BFb0099M02 mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_002465559.1 | 1e-167 | LOB domain-containing protein 30 | ||||
Swissprot | O22131 | 1e-68 | LBD18_ARATH; LOB domain-containing protein 18 | ||||
TrEMBL | A0A1Z5SAP0 | 1e-172 | A0A1Z5SAP0_SORBI; Uncharacterized protein | ||||
STRING | Sb01g041130.1 | 1e-166 | (Sorghum bicolor) |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT2G45420.1 | 6e-65 | LOB domain-containing protein 18 |
Link Out ? help Back to Top | |
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Phytozome | Sobic.001G437300.2.p |
Entrez Gene | 8054343 |
Publications ? help Back to Top | |||
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