Reviews - 1duz mentioned but not cited (3)
- Glimpses of the molecular mechanisms of beta2-microglobulin fibril formation in vitro: aggregation on a complex energy landscape. Platt GW, Radford SE. FEBS Lett 583 2623-2629 (2009)
- Dynamics of MHC-I molecules in the antigen processing and presentation pathway. Truong HV, Sgourakis NG. Curr Opin Immunol 70 122-128 (2021)
- Unconventional Peptide Presentation by Classical MHC Class I and Implications for T and NK Cell Activation. Zajonc DM. Int J Mol Sci 21 E7561 (2020)
Articles - 1duz mentioned but not cited (41)
- Recognition of a virus-encoded ligand by a natural killer cell activation receptor. Smith HR, Heusel JW, Mehta IK, Kim S, Dorner BG, Naidenko OV, Iizuka K, Furukawa H, Beckman DL, Pingel JT, Scalzo AA, Fremont DH, Yokoyama WM. Proc Natl Acad Sci U S A 99 8826-8831 (2002)
- Crystal structure of monomeric human beta-2-microglobulin reveals clues to its amyloidogenic properties. Trinh CH, Smith DP, Kalverda AP, Phillips SE, Radford SE. Proc Natl Acad Sci U S A 99 9771-9776 (2002)
- The molecular basis for Mucosal-Associated Invariant T cell recognition of MR1 proteins. López-Sagaseta J, Dulberger CL, Crooks JE, Parks CD, Luoma AM, McFedries A, Van Rhijn I, Saghatelian A, Adams EJ. Proc Natl Acad Sci U S A 110 E1771-8 (2013)
- Monitoring copopulated conformational states during protein folding events using electrospray ionization-ion mobility spectrometry-mass spectrometry. Smith DP, Giles K, Bateman RH, Radford SE, Ashcroft AE. J Am Soc Mass Spectrom 18 2180-2190 (2007)
- β₂-microglobulin forms three-dimensional domain-swapped amyloid fibrils with disulfide linkages. Liu C, Sawaya MR, Eisenberg D. Nat Struct Mol Biol 18 49-55 (2011)
- Broad TCR repertoire and diverse structural solutions for recognition of an immunodominant CD8+ T cell epitope. Song I, Gil A, Mishra R, Ghersi D, Selin LK, Stern LJ. Nat Struct Mol Biol 24 395-406 (2017)
- Modeling the structure of bound peptide ligands to major histocompatibility complex. Tong JC, Tan TW, Ranganathan S. Protein Sci 13 2523-2532 (2004)
- Structure of the preamyloid dimer of beta-2-microglobulin from covalent labeling and mass spectrometry. Mendoza VL, Antwi K, Barón-Rodríguez MA, Blanco C, Vachet RW. Biochemistry 49 1522-1532 (2010)
- Amyloidogenic regions and interaction surfaces overlap in globular proteins related to conformational diseases. Castillo V, Ventura S. PLoS Comput Biol 5 e1000476 (2009)
- Structure Based Prediction of Neoantigen Immunogenicity. Riley TP, Keller GLJ, Smith AR, Davancaze LM, Arbuiso AG, Devlin JR, Baker BM. Front Immunol 10 2047 (2019)
- A Structural-informatics approach for tracing beta-sheets: building pseudo-C(alpha) traces for beta-strands in intermediate-resolution density maps. Kong Y, Zhang X, Baker TS, Ma J. J Mol Biol 339 117-130 (2004)
- Intermolecular alignment in β2-microglobulin amyloid fibrils. Debelouchina GT, Platt GW, Bayro MJ, Radford SE, Griffin RG. J Am Chem Soc 132 17077-17079 (2010)
- How structural adaptability exists alongside HLA-A2 bias in the human αβ TCR repertoire. Blevins SJ, Pierce BG, Singh NK, Riley TP, Wang Y, Spear TT, Nishimura MI, Weng Z, Baker BM. Proc Natl Acad Sci U S A 113 E1276-85 (2016)
- Mechanism for antibody catalysis of the oxidation of water by singlet dioxygen. Datta D, Vaidehi N, Xu X, Goddard WA. Proc Natl Acad Sci U S A 99 2636-2641 (2002)
- Molecular determinants of chaperone interactions on MHC-I for folding and antigen repertoire selection. McShan AC, Devlin CA, Overall SA, Park J, Toor JS, Moschidi D, Flores-Solis D, Choi H, Tripathi S, Procko E, Sgourakis NG. Proc Natl Acad Sci U S A 116 25602-25613 (2019)
- Dynamically Driven Allostery in MHC Proteins: Peptide-Dependent Tuning of Class I MHC Global Flexibility. Ayres CM, Abualrous ET, Bailey A, Abraham C, Hellman LM, Corcelli SA, Noé F, Elliott T, Baker BM. Front Immunol 10 966 (2019)
- pDOCK: a new technique for rapid and accurate docking of peptide ligands to Major Histocompatibility Complexes. Khan JM, Ranganathan S. Immunome Res 6 Suppl 1 S2 (2010)
- APE-Gen: A Fast Method for Generating Ensembles of Bound Peptide-MHC Conformations. Abella JR, Antunes DA, Clementi C, Kavraki LE. Molecules 24 E881 (2019)
- TAPBPR promotes antigen loading on MHC-I molecules using a peptide trap. McShan AC, Devlin CA, Morozov GI, Overall SA, Moschidi D, Akella N, Procko E, Sgourakis NG. Nat Commun 12 3174 (2021)
- Changing the peptide specificity of a human T-cell receptor by directed evolution. Smith SN, Wang Y, Baylon JL, Singh NK, Baker BM, Tajkhorshid E, Kranz DM. Nat Commun 5 5223 (2014)
- Backbone-independent NMR resonance assignments of methyl probes in large proteins. Nerli S, De Paula VS, McShan AC, Sgourakis NG. Nat Commun 12 691 (2021)
- Structure of HLA-A*0301 in complex with a peptide of proteolipid protein: insights into the role of HLA-A alleles in susceptibility to multiple sclerosis. McMahon RM, Friis L, Siebold C, Friese MA, Fugger L, Jones EY. Acta Crystallogr D Biol Crystallogr 67 447-454 (2011)
- Geometrical characterization of T cell receptor binding modes reveals class-specific binding to maximize access to antigen. Singh NK, Abualrous ET, Ayres CM, Noé F, Gowthaman R, Pierce BG, Baker BM. Proteins 88 503-513 (2020)
- PANDORA: A Fast, Anchor-Restrained Modelling Protocol for Peptide: MHC Complexes. Marzella DF, Parizi FM, van Tilborg D, Renaud N, Sybrandi D, Buzatu R, Rademaker DT, 't Hoen PAC, Xue LC. Front Immunol 13 878762 (2022)
- An in-depth in silico and immunoinformatics approach for designing a potential multi-epitope construct for the effective development of vaccine to combat against SARS-CoV-2 encompassing variants of concern and interest. Saba AA, Adiba M, Saha P, Hosen MI, Chakraborty S, Nabi AHMN. Comput Biol Med 136 104703 (2021)
- In silico design of a multi-epitope vaccine against HPV16/18. Sanami S, Rafieian-Kopaei M, Dehkordi KA, Pazoki-Toroudi H, Azadegan-Dehkordi F, Mobini GR, Alizadeh M, Nezhad MS, Ghasemi-Dehnoo M, Bagheri N. BMC Bioinformatics 23 311 (2022)
- Modeling Sequence-Dependent Peptide Fluctuations in Immunologic Recognition. Ayres CM, Riley TP, Corcelli SA, Baker BM. J Chem Inf Model 57 1990-1998 (2017)
- Structure of an early native-like intermediate of β2-microglobulin amyloidogenesis. Vanderhaegen S, Fislage M, Domanska K, Versées W, Pardon E, Bellotti V, Steyaert J. Protein Sci 22 1349-1357 (2013)
- TAPBPR employs a ligand-independent docking mechanism to chaperone MR1 molecules. McShan AC, Devlin CA, Papadaki GF, Sun Y, Green AI, Morozov GI, Burslem GM, Procko E, Sgourakis NG. Nat Chem Biol 18 859-868 (2022)
- Simulation of pH-dependent edge strand rearrangement in human beta-2 microglobulin. Park S, Saven JG. Protein Sci 15 200-207 (2006)
- EpicCapo: epitope prediction using combined information of amino acid pairwise contact potentials and HLA-peptide contact site information. Saethang T, Hirose O, Kimkong I, Tran VA, Dang XT, Nguyen LA, Le TK, Kubo M, Yamada Y, Satou K. BMC Bioinformatics 13 313 (2012)
- Her-2/ neu altered peptide ligand-induced CTL responses: implications for peptides with increased HLA affinity and T-cell-receptor interaction. Dionne SO, Myers CE, Smith MH, Lake DF. Cancer Immunol Immunother 53 307-314 (2004)
- Immunoinformatics-Aided Analysis of RSV Fusion and Attachment Glycoproteins to Design a Potent Multi-Epitope Vaccine. Dar HA, Almajhdi FN, Aziz S, Waheed Y. Vaccines (Basel) 10 1381 (2022)
- Conserved HLA binding peptides from five non-structural proteins of SARS-CoV-2-An in silico glance. Marchan J. Hum Immunol 81 588-595 (2020)
- Universal open MHC-I molecules for rapid peptide loading and enhanced complex stability across HLA allotypes. Sun Y, Young MC, Woodward CH, Danon JN, Truong HV, Gupta S, Winters TJ, Font-Burgada J, Burslem GM, Sgourakis NG. Proc Natl Acad Sci U S A 120 e2304055120 (2023)
- Prediction of an Epitope-based Computational Vaccine Strategy for Gaining Concurrent Immunization Against the Venom Proteins of Australian Box Jellyfish. Alam MJ, Ashraf KU. Toxicol Int 20 235-253 (2013)
- Binding of TCR multimers and a TCR-like antibody with distinct fine-specificities is dependent on the surface density of HLA complexes. Low JL, Naidoo A, Yeo G, Gehring AJ, Ho ZZ, Yau YH, Shochat SG, Kranz DM, Bertoletti A, Grotenbreg GM. PLoS One 7 e51397 (2012)
- Design and evaluation of a multi-epitope DNA vaccine against HPV16. Zhu L, Cui X, Yan Z, Tao Y, Shi L, Zhang X, Yao Y, Shi L. Hum Vaccin Immunother 20 2352908 (2024)
- Selection pressure in CD8⁺ T-cell epitopes in the pol gene of HIV-1 infected individuals in Colombia. A bioinformatic approach. Acevedo-Sáenz L, Ochoa R, Rugeles MT, Olaya-García P, Velilla-Hernández PA, Diaz FJ. Viruses 7 1313-1331 (2015)
- COSMIC-based mutation database enhances identification efficiency of HLA-I immunopeptidome. Wang F, Zhang Z, Mao M, Yang Y, Xu P, Lu S. J Transl Med 22 144 (2024)
- The Use of Molecular Dynamics Simulation Method to Quantitatively Evaluate the Affinity between HBV Antigen T Cell Epitope Peptides and HLA-A Molecules. Mei X, Li X, Zhao C, Liu A, Ding Y, Shen C, Li J. Int J Mol Sci 23 4629 (2022)
Reviews citing this publication (17)
- T cell antigen receptor recognition of antigen-presenting molecules. Rossjohn J, Gras S, Miles JJ, Turner SJ, Godfrey DI, McCluskey J. Annu Rev Immunol 33 169-200 (2015)
- Antigenicity and immunogenicity of Melan-A/MART-1 derived peptides as targets for tumor reactive CTL in human melanoma. Romero P, Valmori D, Pittet MJ, Zippelius A, Rimoldi D, Lévy F, Dutoit V, Ayyoub M, Rubio-Godoy V, Michielin O, Guillaume P, Batard P, Luescher IF, Lejeune F, Liénard D, Rufer N, Dietrich PY, Speiser DE, Cerottini JC. Immunol Rev 188 81-96 (2002)
- Conformational changes and flexibility in T-cell receptor recognition of peptide-MHC complexes. Armstrong KM, Piepenbrink KH, Baker BM. Biochem J 415 183-196 (2008)
- The optimization of peptide cargo bound to MHC class I molecules by the peptide-loading complex. Elliott T, Williams A. Immunol Rev 207 89-99 (2005)
- A structural voyage toward an understanding of the MHC-I-restricted immune response: lessons learned and much to be learned. Gras S, Burrows SR, Turner SJ, Sewell AK, McCluskey J, Rossjohn J. Immunol Rev 250 61-81 (2012)
- Understanding the complex mechanisms of β2-microglobulin amyloid assembly. Eichner T, Radford SE. FEBS J 278 3868-3883 (2011)
- Tapasin and other chaperones: models of the MHC class I loading complex. Wright CA, Kozik P, Zacharias M, Springer S. Biol Chem 385 763-778 (2004)
- Accessory proteins and the assembly of human class I MHC molecules: a molecular and structural perspective. Bouvier M. Mol Immunol 39 697-706 (2003)
- Structural studies on HLA-G: implications for ligand and receptor binding. Clements CS, Kjer-Nielsen L, McCluskey J, Rossjohn J. Hum Immunol 68 220-226 (2007)
- Virus subversion of immunity: a structural perspective. Gewurz BE, Gaudet R, Tortorella D, Wang EW, Ploegh HL. Curr Opin Immunol 13 442-450 (2001)
- Recombinant antibodies with MHC-restricted, peptide-specific, T-cell receptor-like specificity: new tools to study antigen presentation and TCR-peptide-MHC interactions. Cohen CJ, Denkberg G, Lev A, Epel M, Reiter Y. J Mol Recognit 16 324-332 (2003)
- beta(2)-microglobulin: from physiology to amyloidosis. Heegaard NH. Amyloid 16 151-173 (2009)
- The Impact of the 'Mis-Peptidome' on HLA Class I-Mediated Diseases: Contribution of ERAP1 and ERAP2 and Effects on the Immune Response. Tedeschi V, Paldino G, Paladini F, Mattorre B, Tuosto L, Sorrentino R, Fiorillo MT. Int J Mol Sci 21 E9608 (2020)
- T-cell activation by lipopeptide antigens. Van Rhijn I, Zajonc DM, Wilson IA, Moody DB. Curr Opin Immunol 17 222-229 (2005)
- Peptide trafficking and translocation across membranes in cellular signaling and self-defense strategies. Abele R, Tampé R. Curr Opin Cell Biol 21 508-515 (2009)
- Structural Prediction of Peptide-MHC Binding Modes. Perez MAS, Cuendet MA, Röhrig UF, Michielin O, Zoete V. Methods Mol Biol 2405 245-282 (2022)
- "It's Only a Model": When Protein Structure Predictions Need Experimental Validation, the Case of the HTLV-1 Tax Protein. Guillon C, Robert X, Gouet P. Pathogens 13 241 (2024)
Articles citing this publication (85)
- Insights into MHC class I peptide loading from the structure of the tapasin-ERp57 thiol oxidoreductase heterodimer. Dong G, Wearsch PA, Peaper DR, Cresswell P, Reinisch KM. Immunity 30 21-32 (2009)
- Crystal structure of CD1a in complex with a sulfatide self antigen at a resolution of 2.15 A. Zajonc DM, Elsliger MA, Teyton L, Wilson IA. Nat Immunol 4 808-815 (2003)
- T cell receptor cross-reactivity directed by antigen-dependent tuning of peptide-MHC molecular flexibility. Borbulevych OY, Piepenbrink KH, Gloor BE, Scott DR, Sommese RF, Cole DK, Sewell AK, Baker BM. Immunity 31 885-896 (2009)
- The PickPocket method for predicting binding specificities for receptors based on receptor pocket similarities: application to MHC-peptide binding. Zhang H, Lund O, Nielsen M. Bioinformatics 25 1293-1299 (2009)
- Analysis of interactions in a tapasin/class I complex provides a mechanism for peptide selection. Chen M, Bouvier M. EMBO J 26 1681-1690 (2007)
- Structures of an MHC class I molecule from B21 chickens illustrate promiscuous peptide binding. Koch M, Camp S, Collen T, Avila D, Salomonsen J, Wallny HJ, van Hateren A, Hunt L, Jacob JP, Johnston F, Marston DA, Shaw I, Dunbar PR, Cerundolo V, Jones EY, Kaufman J. Immunity 27 885-899 (2007)
- Conversion of a T cell antagonist into an agonist by repairing a defect in the TCR/peptide/MHC interface: implications for TCR signaling. Baker BM, Gagnon SJ, Biddison WE, Wiley DC. Immunity 13 475-484 (2000)
- Antigen presentation subverted: Structure of the human cytomegalovirus protein US2 bound to the class I molecule HLA-A2. Gewurz BE, Gaudet R, Tortorella D, Wang EW, Ploegh HL, Wiley DC. Proc Natl Acad Sci U S A 98 6794-6799 (2001)
- Conformational flexibility of the MHC class I alpha1-alpha2 domain in peptide bound and free states: a molecular dynamics simulation study. Zacharias M, Springer S. Biophys J 87 2203-2214 (2004)
- Amyloid-forming peptides from beta2-microglobulin-Insights into the mechanism of fibril formation in vitro. Jones S, Manning J, Kad NM, Radford SE. J Mol Biol 325 249-257 (2003)
- Two different T cell receptors use different thermodynamic strategies to recognize the same peptide/MHC ligand. Davis-Harrison RL, Armstrong KM, Baker BM. J Mol Biol 346 533-550 (2005)
- A systematic investigation into the effect of protein destabilisation on beta 2-microglobulin amyloid formation. Smith DP, Jones S, Serpell LC, Sunde M, Radford SE. J Mol Biol 330 943-954 (2003)
- Crystal structure of HLA-G: a nonclassical MHC class I molecule expressed at the fetal-maternal interface. Clements CS, Kjer-Nielsen L, Kostenko L, Hoare HL, Dunstone MA, Moses E, Freed K, Brooks AG, Rossjohn J, McCluskey J. Proc Natl Acad Sci U S A 102 3360-3365 (2005)
- Increased immunogenicity of an anchor-modified tumor-associated antigen is due to the enhanced stability of the peptide/MHC complex: implications for vaccine design. Borbulevych OY, Baxter TK, Yu Z, Restifo NP, Baker BM. J Immunol 174 4812-4820 (2005)
- Selective activation, expansion, and monitoring of human iNKT cells with a monoclonal antibody specific for the TCR alpha-chain CDR3 loop. Exley MA, Exley MA, Hou R, Shaulov A, Tonti E, Dellabona P, Casorati G, Akbari O, Akman HO, Greenfield EA, Gumperz JE, Boyson JE, Balk SP, Wilson SB. Eur J Immunol 38 1756-1766 (2008)
- Two different, highly exposed, bulged structures for an unusually long peptide bound to rat MHC class I RT1-Aa. Speir JA, Stevens J, Joly E, Butcher GW, Wilson IA. Immunity 14 81-92 (2001)
- Structures of MART-126/27-35 Peptide/HLA-A2 complexes reveal a remarkable disconnect between antigen structural homology and T cell recognition. Borbulevych OY, Insaidoo FK, Baxter TK, Powell DJ, Johnson LA, Restifo NP, Baker BM. J Mol Biol 372 1123-1136 (2007)
- Dynamics in the unfolded state of beta2-microglobulin studied by NMR. Platt GW, McParland VJ, Kalverda AP, Homans SW, Radford SE. J Mol Biol 346 279-294 (2005)
- Human cytomegalovirus UL40 signal peptide regulates cell surface expression of the NK cell ligands HLA-E and gpUL18. Prod'homme V, Tomasec P, Cunningham C, Lemberg MK, Stanton RJ, McSharry BP, Wang EC, Cuff S, Martoglio B, Davison AJ, Braud VM, Wilkinson GW. J Immunol 188 2794-2804 (2012)
- Crystal structures of two closely related but antigenically distinct HLA-A2/melanocyte-melanoma tumor-antigen peptide complexes. Sliz P, Michielin O, Cerottini JC, Luescher I, Romero P, Karplus M, Wiley DC. J Immunol 167 3276-3284 (2001)
- Identification of a crucial energetic footprint on the alpha1 helix of human histocompatibility leukocyte antigen (HLA)-A2 that provides functional interactions for recognition by tax peptide/HLA-A2-specific T cell receptors. Baker BM, Turner RV, Gagnon SJ, Wiley DC, Biddison WE. J Exp Med 193 551-562 (2001)
- Conformational melding permits a conserved binding geometry in TCR recognition of foreign and self molecular mimics. Borbulevych OY, Piepenbrink KH, Baker BM. J Immunol 186 2950-2958 (2011)
- Magic angle spinning NMR analysis of beta2-microglobulin amyloid fibrils in two distinct morphologies. Debelouchina GT, Platt GW, Bayro MJ, Radford SE, Griffin RG. J Am Chem Soc 132 10414-10423 (2010)
- Conformational restraints and flexibility of 14-meric peptides in complex with HLA-B*3501. Probst-Kepper M, Hecht HJ, Herrmann H, Janke V, Ocklenburg F, Klempnauer J, van den Eynde BJ, Weiss S. J Immunol 173 5610-5616 (2004)
- A structural-informatics approach for mining beta-sheets: locating sheets in intermediate-resolution density maps. Kong Y, Ma J. J Mol Biol 332 399-413 (2003)
- T cell receptor recognition via cooperative conformational plasticity. Gagnon SJ, Borbulevych OY, Davis-Harrison RL, Turner RV, Damirjian M, Wojnarowicz A, Biddison WE, Baker BM. J Mol Biol 363 228-243 (2006)
- SARS-CoV-2 accessory proteins ORF7a and ORF3a use distinct mechanisms to down-regulate MHC-I surface expression. Arshad N, Laurent-Rolle M, Ahmed WS, Hsu JC, Mitchell SM, Pawlak J, Sengupta D, Biswas KH, Cresswell P. Proc Natl Acad Sci U S A 120 e2208525120 (2023)
- In silico quantitative prediction of peptides binding affinity to human MHC molecule: an intuitive quantitative structure-activity relationship approach. Tian F, Yang L, Lv F, Yang Q, Zhou P. Amino Acids 36 535-554 (2009)
- Differential scanning fluorimetry based assessments of the thermal and kinetic stability of peptide-MHC complexes. Hellman LM, Yin L, Wang Y, Blevins SJ, Riley TP, Belden OS, Spear TT, Nishimura MI, Stern LJ, Baker BM. J Immunol Methods 432 95-101 (2016)
- Loss of T cell antigen recognition arising from changes in peptide and major histocompatibility complex protein flexibility: implications for vaccine design. Insaidoo FK, Borbulevych OY, Hossain M, Santhanagopolan SM, Baxter TK, Baker BM. J Biol Chem 286 40163-40173 (2011)
- Peptide modulation of class I major histocompatibility complex protein molecular flexibility and the implications for immune recognition. Hawse WF, Gloor BE, Ayres CM, Kho K, Nuter E, Baker BM. J Biol Chem 288 24372-24381 (2013)
- The Peptidome of Behçet's Disease-Associated HLA-B*51:01 Includes Two Subpeptidomes Differentially Shaped by Endoplasmic Reticulum Aminopeptidase 1. Guasp P, Alvarez-Navarro C, Gomez-Molina P, Martín-Esteban A, Marcilla M, Barnea E, Admon A, López de Castro JA. Arthritis Rheumatol 68 505-515 (2016)
- T-cell receptor-optimized peptide skewing of the T-cell repertoire can enhance antigen targeting. Ekeruche-Makinde J, Clement M, Cole DK, Edwards ES, Ladell K, Miles JJ, Matthews KK, Fuller A, Lloyd KA, Madura F, Dolton GM, Pentier J, Lissina A, Gostick E, Baxter TK, Baker BM, Rizkallah PJ, Price DA, Wooldridge L, Sewell AK. J Biol Chem 287 37269-37281 (2012)
- Dipeptides promote folding and peptide binding of MHC class I molecules. Saini SK, Ostermeir K, Ramnarayan VR, Schuster H, Zacharias M, Springer S. Proc Natl Acad Sci U S A 110 15383-15388 (2013)
- A comprehensive calorimetric investigation of an entropically driven T cell receptor-peptide/major histocompatibility complex interaction. Armstrong KM, Baker BM. Biophys J 93 597-609 (2007)
- A role for UDP-glucose glycoprotein glucosyltransferase in expression and quality control of MHC class I molecules. Zhang W, Wearsch PA, Zhu Y, Leonhardt RM, Cresswell P. Proc Natl Acad Sci U S A 108 4956-4961 (2011)
- Crystal structure of a non-canonical low-affinity peptide complexed with MHC class I: a new approach for vaccine design. Apostolopoulos V, Yu M, Corper AL, Teyton L, Pietersz GA, McKenzie IF, Wilson IA, Plebanski M. J Mol Biol 318 1293-1305 (2002)
- High-resolution structure of HLA-A*0201 in complex with a tumour-specific antigenic peptide encoded by the MAGE-A4 gene. Hillig RC, Coulie PG, Stroobant V, Saenger W, Ziegler A, Hülsmeyer M. J Mol Biol 310 1167-1176 (2001)
- Identification and structural definition of H5-specific CTL epitopes restricted by HLA-A*0201 derived from the H5N1 subtype of influenza A viruses. Sun Y, Liu J, Yang M, Gao F, Zhou J, Kitamura Y, Gao B, Tien P, Shu Y, Iwamoto A, Chen Z, Gao GF. J Gen Virol 91 919-930 (2010)
- Role of the N and C-terminal strands of beta 2-microglobulin in amyloid formation at neutral pH. Jones S, Smith DP, Radford SE. J Mol Biol 330 935-941 (2003)
- MHC class I bound to an immunodominant Theileria parva epitope demonstrates unconventional presentation to T cell receptors. Macdonald IK, Harkiolaki M, Hunt L, Connelley T, Carroll AV, MacHugh ND, Graham SP, Jones EY, Morrison WI, Flower DR, Ellis SA. PLoS Pathog 6 e1001149 (2010)
- Modification of a tumor-derived peptide at an HLA-A2 anchor residue can alter the conformation of the MHC-peptide complex: probing with TCR-like recombinant antibodies. Denkberg G, Klechevsky E, Reiter Y. J Immunol 169 4399-4407 (2002)
- High throughput pMHC-I tetramer library production using chaperone-mediated peptide exchange. Overall SA, Toor JS, Hao S, Yarmarkovich M, Sara M O'Rourke, Morozov GI, Nguyen S, Japp AS, Gonzalez N, Moschidi D, Betts MR, Maris JM, Smibert P, Sgourakis NG. Nat Commun 11 1909 (2020)
- Investigating the structural properties of amyloid-like fibrils formed in vitro from beta2-microglobulin using limited proteolysis and electrospray ionisation mass spectrometry. Myers SL, Thomson NH, Radford SE, Ashcroft AE. Rapid Commun Mass Spectrom 20 1628-1636 (2006)
- Unraveling a hotspot for TCR recognition on HLA-A2: evidence against the existence of peptide-independent TCR binding determinants. Gagnon SJ, Borbulevych OY, Davis-Harrison RL, Baxter TK, Clemens JR, Armstrong KM, Turner RV, Damirjian M, Biddison WE, Baker BM. J Mol Biol 353 556-573 (2005)
- Structural prediction of peptides bound to MHC class I. Fagerberg T, Cerottini JC, Michielin O. J Mol Biol 356 521-546 (2006)
- Secondary structure in the core of amyloid fibrils formed from human β₂m and its truncated variant ΔN6. Su Y, Sarell CJ, Eddy MT, Debelouchina GT, Andreas LB, Pashley CL, Radford SE, Griffin RG. J Am Chem Soc 136 6313-6325 (2014)
- Structural basis for T cell alloreactivity among three HLA-B14 and HLA-B27 antigens. Kumar P, Vahedi-Faridi A, Saenger W, Merino E, López de Castro JA, Uchanska-Ziegler B, Ziegler A. J Biol Chem 284 29784-29797 (2009)
- Peptide recognition by the T cell receptor: comparison of binding free energies from thermodynamic integration, Poisson-Boltzmann and linear interaction energy approximations. Wan S, Coveney PV, Flower DR. Philos Trans A Math Phys Eng Sci 363 2037-2053 (2005)
- A role for the P1 anchor residue in the thermal stability of MHC class II molecule I-Ab. Tobita T, Oda M, Morii H, Kuroda M, Yoshino A, Azuma T, Kozono H. Immunol Lett 85 47-52 (2003)
- Beta2-microglobulin amyloidosis: insights from conservation analysis and fibril modelling by protein docking techniques. Benyamini H, Gunasekaran K, Wolfson H, Nussinov R. J Mol Biol 330 159-174 (2003)
- Scrutinizing MHC-I binding peptides and their limits of variation. Koch CP, Perna AM, Pillong M, Todoroff NK, Wrede P, Folkers G, Hiss JA, Schneider G. PLoS Comput Biol 9 e1003088 (2013)
- Structures of native and affinity-enhanced WT1 epitopes bound to HLA-A*0201: implications for WT1-based cancer therapeutics. Borbulevych OY, Do P, Baker BM. Mol Immunol 47 2519-2524 (2010)
- A novel population of human melanoma-specific CD8 T cells recognizes Melan-AMART-1 immunodominant nonapeptide but not the corresponding decapeptide. Derré L, Ferber M, Touvrey C, Devevre E, Zoete V, Leimgruber A, Romero P, Michielin O, Lévy F, Speiser DE. J Immunol 179 7635-7645 (2007)
- Molecular basis of peptide recognition by the TCR: affinity differences calculated using large scale computing. Wan S, Coveney PV, Flower DR. J Immunol 175 1715-1723 (2005)
- TCR-induced alteration of primary MHC peptide anchor residue. Madura F, Rizkallah PJ, Legut M, Holland CJ, Fuller A, Bulek A, Schauenburg AJ, Trimby A, Hopkins JR, Wells SA, Godkin A, Miles JJ, Sami M, Li Y, Liddy N, Jakobsen BK, Loveridge EJ, Cole DK, Sewell AK. Eur J Immunol 49 1052-1066 (2019)
- The presentation of SARS-CoV-2 peptides by the common HLA-A∗02:01 molecule. Szeto C, Chatzileontiadou DSM, Nguyen AT, Sloane H, Lobos CA, Jayasinghe D, Halim H, Smith C, Riboldi-Tunnicliffe A, Grant EJ, Gras S. iScience 24 102096 (2021)
- EGFR T790M mutation as a possible target for immunotherapy; identification of HLA-A*0201-restricted T cell epitopes derived from the EGFR T790M mutation. Yamada T, Azuma K, Muta E, Kim J, Sugawara S, Zhang GL, Matsueda S, Kasama-Kawaguchi Y, Yamashita Y, Yamashita T, Nishio K, Itoh K, Hoshino T, Sasada T. PLoS One 8 e78389 (2013)
- A novel MHCp binding prediction model. Zhao B, Mathura VS, Rajaseger G, Moochhala S, Sakharkar MK, Kangueane P. Hum Immunol 64 1123-1143 (2003)
- Hepatitis C virus-cross-reactive TCR gene-modified T cells: a model for immunotherapy against diseases with genomic instability. Spear TT, Riley TP, Lyons GE, Callender GG, Roszkowski JJ, Wang Y, Simms PE, Scurti GM, Foley KC, Murray DC, Hellman LM, McMahan RH, Iwashima M, Garrett-Mayer E, Rosen HR, Baker BM, Nishimura MI. J Leukoc Biol 100 545-557 (2016)
- A general and efficient approach for NMR studies of peptide dynamics in class I MHC peptide binding grooves. Insaidoo FK, Zajicek J, Baker BM. Biochemistry 48 9708-9710 (2009)
- Peptide length variants p2Ca and QL9 present distinct conformations to L(d)-specific T cells. Hornell TM, Martin SM, Myers NB, Connolly JM. J Immunol 167 4207-4214 (2001)
- The origin of proteasome-inhibitor resistant HLA class I peptidomes: a study with HLA-A*68:01. García-Medel N, Sanz-Bravo A, Barnea E, Admon A, López de Castro JA. Mol Cell Proteomics 11 M111.011486 (2012)
- Unusual Placement of an EBV Epitope into the Groove of the Ankylosing Spondylitis-Associated HLA-B27 Allele Allows CD8+ T Cell Activation. Tedeschi V, Alba J, Paladini F, Paroli M, Cauli A, Mathieu A, Sorrentino R, D'Abramo M, Fiorillo MT. Cells 8 E572 (2019)
- A tale of two tails: The importance of unstructured termini in the aggregation pathway of β2-microglobulin. Loureiro RJS, Vila-Viçosa D, Machuqueiro M, Shakhnovich EI, Faísca PFN. Proteins 85 2045-2057 (2017)
- ARTEMIS: A Novel Mass-Spec Platform for HLA-Restricted Self and Disease-Associated Peptide Discovery. Finton KAK, Brusniak MY, Jones LA, Lin C, Fioré-Gartland AJ, Brock C, Gafken PR, Strong RK. Front Immunol 12 658372 (2021)
- Examination of possible structural constraints of MHC-binding peptides by assessment of their native structure within their source proteins. Schueler-Furman O, Altuvia Y, Margalit H. Proteins 45 47-54 (2001)
- Identification of the core regulators of the HLA I-peptide binding process. Zhang YH, Xing Z, Liu C, Wang S, Huang T, Cai YD, Kong X. Sci Rep 7 42768 (2017)
- An Engineered T Cell Receptor Variant Realizes the Limits of Functional Binding Modes. Singh NK, Alonso JA, Harris DT, Anderson SD, Ma J, Hellman LM, Rosenberg AM, Kolawole EM, Evavold BD, Kranz DM, Baker BM. Biochemistry 59 4163-4175 (2020)
- Dissection of the interaction of the human cytomegalovirus-derived US2 protein with major histocompatibility complex class I molecules: prominent role of a single arginine residue in human leukocyte antigen-A2. Thilo C, Berglund P, Applequist SE, Yewdell JW, Ljunggren HG, Achour A. J Biol Chem 281 8950-8957 (2006)
- The Ankylosing Spondylitis-associated HLA-B*2705 presents a B*0702-restricted EBV epitope and sustains the clonal amplification of cytotoxic T cells in patients. Tedeschi V, Vitulano C, Cauli A, Paladini F, Piga M, Mathieu A, Sorrentino R, Fiorillo MT. Mol Med 22 215-223 (2016)
- Primary and secondary functions of HLA-E are determined by stability and conformation of the peptide-bound complexes. Walters LC, Rozbesky D, Harlos K, Quastel M, Sun H, Springer S, Rambo RP, Mohammed F, Jones EY, McMichael AJ, Gillespie GM. Cell Rep 39 110959 (2022)
- Side-chain conformational space analysis (SCSA): a multi conformation-based QSAR approach for modeling and prediction of protein-peptide binding affinities. Zhou P, Chen X, Shang Z. J Comput Aided Mol Des 23 129-141 (2009)
- A combined high-resolution mass spectrometric and in silico approach for the characterisation of small ligands of beta2-microglobulin. Regazzoni L, Bertoletti L, Vistoli G, Colombo R, Aldini G, Serra M, Carini M, Caccialanza G, De Lorenzi E. ChemMedChem 5 1015-1025 (2010)
- Dual non-contiguous peptide occupancy of HLA class I evoke antiviral human CD8 T cell response and form neo-epitopes with self-antigens. Xiao Z, Ye Z, Tadwal VS, Shen M, Ren EC. Sci Rep 7 5072 (2017)
- Multiple sclerosis: Molecular mimicry of an antimyelin HLA class I restricted T-cell receptor. Rühl G, Niedl AG, Patronov A, Siewert K, Pinkert S, Kalemanov M, Friese MA, Attfield KE, Antes I, Hohlfeld R, Dornmair K. Neurol Neuroimmunol Neuroinflamm 3 e241 (2016)
- Real-time measurement of myosin-nucleotide noncovalent complexes by electrospray ionization mass spectrometry. White HD, Ashcroft AE. Biophys J 93 914-919 (2007)
- Design, synthesis and evaluation of β-lactam antigenic peptide hybrids; unusual opening of the β-lactam ring in acidic media. Tarbe M, Azcune I, Balentová E, Miles JJ, Edwards EE, Miles KM, Do P, Baker BM, Sewell AK, Aizpurua JM, Douat-Casassus C, Quideau S. Org Biomol Chem 8 5345-5353 (2010)
- Reverse vaccinology and immunoinformatics approaches to design multi-epitope based vaccine against oncogenic KRAS. Ramalingam PS, Arumugam S. Med Oncol 40 283 (2023)
- Sequence evolution of putative cytotoxic T cell epitopes in NS3 region of hepatitis C virus. Guo HZ, Yin Y, Wang WL, Zhang CS, Wang T, Wang Z, Zhang J, Cheng H, Wang HT. World J Gastroenterol 10 847-851 (2004)
- Structural aspect of novel HLA-A*02 allele, A*0286, identified by sequence-based typing. Heo YS, Hwang SH, Kwon OJ, Hur SS, Oh HB. Tissue Antigens 67 84-85 (2006)
- Effects of HLA single chain trimer design on peptide presentation and stability. Finton KAK, Rupert PB, Friend DJ, Dinca A, Lovelace ES, Buerger M, Rusnac DV, Foote-McNabb U, Chour W, Heath JR, Campbell JS, Pierce RH, Strong RK. Front Immunol 14 1170462 (2023)
- LigEvolutioner, a new strategy for modification and optimization of lead compounds in receptor/ligand complexes. Zhou P, Tian F, Shang Z. Chem Biol Drug Des 72 525-532 (2008)
- SARS-CoV-2 ORF7a Mutation Found in BF.5 and BF.7 Sublineages Impacts Its Functions. Timilsina U, Ivey EB, Duffy S, Plianchaisuk A, The Genotype To Phenotype Japan G P-Japan Consortium, Ito J, Sato K, Stavrou S. Int J Mol Sci 25 2351 (2024)
- The Parallel Presentation of Two Functional CTL Epitopes Derived from the O and Asia 1 Serotypes of Foot-and-Mouth Disease Virus and Swine SLA-2*HB01: Implications for Universal Vaccine Development. Feng L, Gao YY, Sun M, Li ZB, Zhang Q, Yang J, Qiao C, Jin H, Feng HS, Xian YH, Qi J, Gao GF, Liu WJ, Gao FS. Cells 11 4017 (2022)
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