An algorithm for the prediction of proteasomal cleavages

Journal of Molecular Biology

Volumn 298, Issue 3, 2000, Pages 417-429

  Kuttler, Christina ^a   Nussbaum, Alexander K ^a   Dick, Tobias P ^a   Rammensee, Hans Georg ^a   Schild, Hansjörg ^a   Hadeler, Karl Peter ^a  

^a UNIVERSITY OF TÜBINGEN   (Germany)

Author keywords

Algorithm; Cleavage motif; MHC class I; Prediction; Proteasome

Indexed keywords

AMINO ACID; MAJOR HISTOCOMPATIBILITY ANTIGEN CLASS 1; PROTEASOME;

ACCURACY; ALGORITHM; ARTICLE; CYTOTOXIC T LYMPHOCYTE; EUKARYOTIC CELL; HUMAN; IMMUNOREGULATION; NONHUMAN; PREDICTION; PRIORITY JOURNAL; PROTEIN DEGRADATION; YEAST;

EUKARYOTA;

EID: 0034607546     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.2000.3683     Document Type: Article

References (43)

1. Primary structures of two homologous subunits of PA28, a gamma-interferon-inducible protein activator of the 20 S proteasome
2. Processive degradation of proteins and other catalytic properties of the proteasome from Thermoplasma acidophilum
3. Identification of the yeast 20 S proteasome catalytic centers and subunit interactions required for active-site formation
4. The proteasome: Paradigm of a self-compartmentalizing protease
5. Interferon gamma stimulation modulates the proteolytic activity and cleavage site preference of 20 S mouse proteasomes
6. Predicting human immunodeficiency virus protease cleavage sites in proteins by a discriminant function method
7. Two distinct proteolytic processes in the generation of a major histocompatibility complex class I-presented peptide
8. Relationship between peptide selectivities of human transporters associated with antigen processing and HLA class I molecules
9. Degradation of oxidized insulin B chain by the multiproteinase complex macropain (proteasome)
10. Proteolytic processing of ovalbumin and beta-galactosidase by the proteasome to a yield antigenic peptides
11. Coordinated dual cleavages induced by the proteasome regulator PA28 lead to dominant MHC ligands
12. Contribution of proteasomal beta-subunits to the cleavage of peptide substrates analyzed with yeast mutants
13. Decelerated degradation of short peptides by the 20 S proteasome
14. Processing of major histocompatibility class I-restricted antigens in the endoplasmic reticulum
15. A role for the proteasome regulator PA28alpha in antigen presentation
16. Structure of 20 S proteasome from yeast at 2.4 and Å resolution
17. The active sites of the eukaryotic 20 S proteasome and their involvement in subunit precursor processing
18. The ubiquitin system
19. A theoretical approach towards the identification of cleavage-determining amino acid motifs of the 20 S proteasome
20. Selective protein degradation: A journey's end within the proteasome
21. Range of sizes of peptide products generated during degradation of different proteins by archaeal proteasomes
22. The sizes of peptides generated from protein by mammalian 26 and 20 S proteasomes. Implications for understanding the degradative mechanism and antigen presentation
23. Proteasome active sites allosterically regulate each other, suggesting a cyclical bite-chew mechanism for protein breakdown
24. Incorporation of major histocompatibility complex-encoded subunits LMP2 and LMP7 changes the quality of the 20 S proteasome polypeptide processing products independent of interferon-gamma
25. Inhibition of antigen processing by the internal repeat region of the Epstein-Barr virus nuclear antigen-1
26. Inhibition of ubiquitin/proteasome-dependent protein degradation by the Gly-Ala repeat domain of the Epstein-Barr virus nuclear antigen 1
27. Cytotoxic T lymphocyte epitopes of HIV-1 nef. Generation of multiple definitive major histocompatibility complex class I ligands by proteasomes
28. Distinct proteolytic processes generate the C and N termini of MHC class I-binding peptides
29. Contribution of proteasome-mediated proteolysis to the hierarchy of epitopes presented by major histocompatibility complex class I molecules
30. The proteolytic fragments generated by vertebrate proteasomes: Structural relationships to major histocompatibility complex class I binding peptides
31. Potential immunocompetence of proteolytic fragments produced by proteasomes before evolution of the vertebrate immune system
32. Cleavage motifs of the yeast 20 S proteasome beta subunits deduced from digests of enolase 1
33. Mechanisms of MHC class I-restricted antigen processing
34. Discrete proteolytic intermediates in the MHC class I antigen processing pathway and MHC I-dependent peptide trimming in the ER
35. Peptides naturally presented by MHC class I molecules
36. Degradation of cell proteins and the generation of MHC class I-presented peptides
37. On the size of the active site in proteases. I. Papain
38. A minimal glycine-alanine repeat prevents the interaction of ubiquitinated I kappaB alpha with the proteasome: A new mechanism for selective inhibition of proteolysis
39. Contribution of proline residue for efficient production of MHC class I ligands by proteasomes
40. Generation of the vesicular stomatitis virus nucleoprotein cytotoxic T lymphocyte epitope requires proteasome-dependent and -independent proteolytic activities
41. Neural network prediction of the HIV-1 protease cleavage sites
42. Specificity of the proteasome and the TAP transporter