Basic Information
Gene Structure
Domain
Regulation&
Interaction
Annotation
Orthologus Group
Expresssion
Pathway
Basic Information
Gene ID
PtXG12250
View in Genome Browser
Position
chr10:363990652-363996329 (-)
5677bp
Gene Type
gene
Gene Description (Protein Product)
E3 ubiquitin-protein ligase
Organism
Pinus tabuliformis
Also AS AT3G16090

Gene Structure

upstream:
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Domain
Database EntryID E-Value Start end InterPro ID Description

Regulation&Interaction
Protein-protein interaction (PPI)
PtXG17930 Ubiquitin family
PtXG42980 Phosducin-like protein 3
PtXG42980
Regulatory gene
Pt0G00460 Transcription factor
Pt0G01630 dof zinc finger protein
Pt0G02510 transcription factor

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Annotation

Orthologous Group
Orthologous ID Species Number All hits in PereRegDB Hits of this species Orthologous Detail

Expression Profile
DataSet Number of Samples expressed(TPM>1) Mean Min Max Standard deviation(SD) Coeffcient variation(CV)


Pathway
Go Pathway KEGG Pathway
GO Term Description GO Category
GO:0000151 ubiquitin ligase complex CC
GO:0000153 cytoplasmic ubiquitin ligase complex CC
GO:0000209 protein polyubiquitination BP
GO:0000835 ER ubiquitin ligase complex CC
GO:0000836 Hrd1p ubiquitin ligase complex CC
GO:0002020 protease binding MF
GO:0003674 molecular_function MF
GO:0003824 catalytic activity MF
GO:0004842 ubiquitin-protein transferase activity MF
GO:0005488 binding MF
GO:0005515 protein binding MF
GO:0005575 cellular_component CC
GO:0005622 intracellular anatomical structure CC
GO:0005623 obsolete cell CC
GO:0005737 cytoplasm CC
GO:0005783 endoplasmic reticulum CC
GO:0005789 endoplasmic reticulum membrane CC
GO:0005886 plasma membrane CC
GO:0006464 protein modification process BP
GO:0006486 protein glycosylation BP
GO:0006487 protein N-linked glycosylation BP
GO:0006508 proteolysis BP
GO:0006511 ubiquitin-dependent protein catabolic process BP
GO:0006807 nitrogen compound metabolic process BP
GO:0006950 response to stress BP
GO:0006986 response to unfolded protein BP
GO:0007154 cell communication BP
GO:0007165 signal transduction BP
GO:0008150 biological_process BP
GO:0008152 metabolic process BP
GO:0009056 catabolic process BP
GO:0009057 macromolecule catabolic process BP
GO:0009058 biosynthetic process BP
GO:0009059 macromolecule biosynthetic process BP
GO:0009100 glycoprotein metabolic process BP
GO:0009101 glycoprotein biosynthetic process BP
GO:0009987 cellular process BP
GO:0010033 response to organic substance BP
GO:0010243 response to organonitrogen compound BP
GO:0010498 proteasomal protein catabolic process BP
GO:0012505 endomembrane system CC
GO:0016020 membrane CC
GO:0016567 protein ubiquitination BP
GO:0016740 transferase activity MF
GO:0018193 peptidyl-amino acid modification BP
GO:0018196 obsolete peptidyl-asparagine modification BP
GO:0018279 protein N-linked glycosylation via asparagine BP
GO:0019538 protein metabolic process BP
GO:0019787 ubiquitin-like protein transferase activity MF
GO:0019899 enzyme binding MF
GO:0019941 modification-dependent protein catabolic process BP
GO:0023052 signaling BP
GO:0030163 protein catabolic process BP
GO:0030433 ubiquitin-dependent ERAD pathway BP
GO:0030968 endoplasmic reticulum unfolded protein response BP
GO:0031984 organelle subcompartment CC
GO:0032446 protein modification by small protein conjugation BP
GO:0032991 protein-containing complex CC
GO:0033554 cellular response to stress BP
GO:0034620 cellular response to unfolded protein BP
GO:0034645 cellular macromolecule biosynthetic process BP
GO:0034976 response to endoplasmic reticulum stress BP
GO:0035966 response to topologically incorrect protein BP
GO:0035967 cellular response to topologically incorrect protein BP
GO:0036211 protein modification process BP
GO:0036503 ERAD pathway BP
GO:0036513 Derlin-1 retrotranslocation complex CC
GO:0042175 nuclear outer membrane-endoplasmic reticulum membrane network CC
GO:0042221 response to chemical BP
GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process BP
GO:0043170 macromolecule metabolic process BP
GO:0043226 organelle CC
GO:0043227 membrane-bounded organelle CC
GO:0043229 intracellular organelle CC
GO:0043231 intracellular membrane-bounded organelle CC
GO:0043412 macromolecule modification BP
GO:0043413 macromolecule glycosylation BP
GO:0043632 modification-dependent macromolecule catabolic process BP
GO:0044237 cellular metabolic process BP
GO:0044238 primary metabolic process BP
GO:0044248 cellular catabolic process BP
GO:0044249 cellular biosynthetic process BP
GO:0044257 protein catabolic process BP
GO:0044260 cellular macromolecule metabolic process BP
GO:0044265 cellular macromolecule catabolic process BP
GO:0044267 protein metabolic process BP
GO:0044322 endoplasmic reticulum quality control compartment CC
GO:0044422 obsolete organelle part CC
GO:0044424 obsolete intracellular part CC
GO:0044425 obsolete membrane part CC
GO:0044432 obsolete endoplasmic reticulum part CC
GO:0044444 obsolete cytoplasmic part CC
GO:0044446 obsolete intracellular organelle part CC
GO:0044464 obsolete cell part CC
GO:0050789 regulation of biological process BP
GO:0050794 regulation of cellular process BP
GO:0050896 response to stimulus BP
GO:0051082 unfolded protein binding MF
GO:0051603 proteolysis involved in protein catabolic process BP
GO:0051716 cellular response to stimulus BP
GO:0061630 ubiquitin protein ligase activity MF
GO:0061659 ubiquitin-like protein ligase activity MF
GO:0065007 biological regulation BP
GO:0070085 glycosylation BP
GO:0070647 protein modification by small protein conjugation or removal BP
GO:0070887 cellular response to chemical stimulus BP
GO:0071310 cellular response to organic substance BP
GO:0071704 organic substance metabolic process BP
GO:0071944 cell periphery CC
GO:0098796 membrane protein complex CC
GO:0098827 endoplasmic reticulum subcompartment CC
GO:0140096 catalytic activity, acting on a protein MF
GO:1901135 carbohydrate derivative metabolic process BP
GO:1901137 carbohydrate derivative biosynthetic process BP
GO:1901564 organonitrogen compound metabolic process BP
GO:1901565 organonitrogen compound catabolic process BP
GO:1901566 organonitrogen compound biosynthetic process BP
GO:1901575 organic substance catabolic process BP
GO:1901576 organic substance biosynthetic process BP
GO:1901698 response to nitrogen compound BP
GO:1902494 catalytic complex CC
GO:1990234 transferase complex CC
GO:1990381 ubiquitin-specific protease binding MF
KEGG Term Name Description
map04141 Protein processing in endoplasmic reticulum The endoplasmic reticulum (ER) is a subcellular organelle where proteins are folded with the help of lumenal chaperones. Newly synthesized peptides enter the ER via the sec61 pore and are glycosylated. Correctly folded proteins are packaged into transport vesicles that shuttle them to the Golgi complex. Misfolded proteins are retained within the ER lumen in complex with molecular chaperones. Proteins that are terminally misfolded bind to BiP and are directed toward degradation through the proteasome in a process called ER-associated degradation (ERAD). Accumulation of misfolded proteins in the ER causes ER stress and activates a signaling pathway called the unfolded protein response (UPR). In certain severe situations, however, the protective mechanisms activated by the UPR are not sufficient to restore normal ER function and cells die by apoptosis.
map04120 Ubiquitin mediated proteolysis Protein ubiquitination plays an important role in eukaryotic cellular processes. It mainly functions as a signal for 26S proteasome dependent protein degradation. The addition of ubiquitin to proteins being degraded is performed by a reaction cascade consisting of three enzymes, named E1 (ubiquitin activating enzyme), E2 (ubiquitin conjugating enzyme), and E3 (ubiquitin ligase). Each E3 has specificity to its substrate, or proteins to be targeted by ubiquitination. Many E3s are discovered in eukaryotes and they are classified into four types: HECT type, U-box type, single RING-finger type, and multi-subunit RING-finger type. Multi-subunit RING-finger E3s are exemplified by cullin-Rbx E3s and APC/C. They consist of a RING-finger-containing subunit (RBX1 or RBX2) that functions to bind E2s, a scaffold-like cullin molecule, adaptor proteins, and a target recognizing subunit that binds substrates.