Falcon deep research report for human PEX13
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The deep research synthesis places PEX13 as the conduit-forming component of the DTM rather than a docking-only scaffold, which is why the GO:0008320 transporter annotation is accepted (as a contributes_to activity) instead of being flagged as an over-annotation.
"PEX13 contributes the core **translocation conduit** in the peroxisomal docking/translocation module (DTM)"
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The YG-rich intrinsically disordered region forms a nucleoporin-like selective phase that PEX5-cargo partitions into, supporting the translocation (GO:0016561) as well as the docking annotation.
"A key mechanistic proposal is that PEX13’s **YG domain** forms a cohesive meshwork (selective phase) inside the membrane, and that **PEX5 partitions into this phase** using its aromatic WxxxF/Y motifs, bringing folded cargo across an aqueous conduit without conventional channel proteins."
Gene Ontology annotation through association of InterPro records with GO terms
Manual transfer of experimentally-verified manual GO annotation data to orthologs by curator judgment of sequence similarity
Annotation inferences using phylogenetic trees
Gene Ontology annotation based on UniProtKB/Swiss-Prot keyword mapping
Gene Ontology annotation based on curation of immunofluorescence data
Combined Automated Annotation using Multiple IEA Methods
PEX19 binds multiple peroxisomal membrane proteins, is predominantly cytoplasmic, and is required for peroxisome membrane synthesis.
Multiple distinct targeting signals in integral peroxisomal membrane proteins.
Pex13, the mouse ortholog of the human peroxisome biogenesis disorder PEX13 gene: gene structure, tissue expression, and localization of the protein to peroxisomes.
Failure of microtubule-mediated peroxisome division and trafficking in disorders with reduced peroxisome abundance.
Peroxisomes in human and mouse testis: differential expression of peroxisomal proteins in germ cells and distinct somatic cell types of the testis.
Structural basis for competitive interactions of Pex14 with the import receptors Pex5 and Pex19.
Defining the membrane proteome of NK cells.
The peroxisomal receptor Pex19p forms a helical mPTS recognition domain.
PEX14 is required for microtubule-based peroxisome motility in human cells.
ATM functions at the peroxisome to induce pexophagy in response to ROS.
The peroxisomal matrix protein translocon is a large cavity-forming protein assembly into which PEX5 protein enters to release its cargo.
A reference map of the human binary protein interactome.
Peroxisome biogenesis initiated by protein phase separation.
Pex13p is an SH3 protein of the peroxisome membrane and a docking factor for the predominantly cytoplasmic PTs1 receptor.
Identification of a human PTS1 receptor docking protein directly required for peroxisomal protein import.
PEX2:PEX10:PEX12 binds PEX5S,L (in PEX5S:PEX13:PEX14) and Ub:UBE2D1,2,3
PEX2:PEX10:PEX12 monoubiquitinates PEX5S,L at cysteine-11
Cargo of PEX5S,L translocates from the cytosol to the peroxisomal matrix
PEX5S,L:Cargo binds PEX13:PEX14:PEX2:PEX10:PEX12 (Docking and Translocation Module)
PEX2:PEX10:PEX12 monoubiquitinates PEX5L at cysteine-11
PEX1:PEX6:PEX26:ZFAND6 dissociates Ub:PEX5L and PEX7 from PEX14:PEX13:PEX2:PEX10:PEX12 and translocates PEX5L and PEX7 from the peroxisomal membrane to the cytosol
Cargo of PEX5L:PEX7 translocates from the cytosol to the peroxisomal matrix
PEX2:PEX10:PEX12:Ub:PEX5L:PEX7:PEX13:PEX14 binds PEX1:PEX6:PEX26 and ZFAND6
PEX2:PEX10:PEX12 binds PEX5L (in PEX5L:PEX7:PEX13:PEX14:PEX2:PEX10:PEX12) and Ub:UBE2D1,2,3
PEX2:PEX10:PEX12:Ub:PEX5S,L:PEX13:PEX14 binds PEX1:PEX6:PEX26 and ZFAND6
PEX3:PEX19:class I PMP dissociates
PEX19:class I PMP binds PEX3
PEX19 binds class I peroxisomal membrane proteins