Structural analysis of natural killer cell receptor protein 1 (NKR-P1) extracellular domains suggests a conserved long loop region involved in ligand specificity

0371075 - ÚVGZ 2012 RIV CZ eng J - Journal Article
Sovová, Žofie - Kopecký, V. - Pazderka, T. - Hofbauerová, Kateřina - Rozbeský, Daniel - Vaněk, Ondřej - Bezouška, K. - Ettrich, Rüdiger
Structural analysis of natural killer cell receptor protein 1 (NKR-P1) extracellular domains suggests a conserved long loop region involved in ligand specificity.
Journal of Molecular Modeling. Roč. 17, č. 6 (2011), s. 1353-1370. ISSN 1610-2940. E-ISSN 0948-5023
R&D Projects: GA MŠMT(CZ) LC06010; GA AV ČR KJB101120805
Institutional research plan: CEZ:AV0Z60870520; CEZ:AV0Z50200510
Keywords : cladogram * differential scanning calorimetry * FTIR * molecular dynamics * raman spectroscopy * RMSF * thermal dynamics * topology * two-dimensional correlation analysis
Subject RIV: CE - Biochemistry
Impact factor: 1.797, year: 2011

Receptor proteins at the cell surface regulate the ability of natural killer cells to recognize and kill a variety of aberrant target cells. The structural features determining the function of natural killer receptor proteins 1 (NKR-P1s) are largely unknown. In the present work, refined homology models are generated for the C-type lectin-like extracellular domains of rat NKR-P1A and NKR-P1B, mouse NKR-P1A, NKR-P1C, NKR-P1F, and NKR-P1G, and human NKR-P1 receptors. Experimental data on secondary structure, tertiary interactions, and thermal transitions are acquired for four of the proteins using Raman and infrared spectroscopy. The experimental and modeling results are in agreement with respect to the overall structures of the NKR-P1 receptor domains, while suggesting functionally significant local differences among species and isoforms. Two sequence regions that are conserved in all analyzed NKR-P1 receptors do not correspond to conserved structural elements as might be expected, but are represented by loop regions, one of which is arranged differently in the constructed models. This region displays high flexibility but is anchored by conserved sequences, suggesting that its position relative to the rest of the domain might be variable. This loop may contribute to ligand-binding specificity via a coupled conformational transition.
Permanent Link: http://hdl.handle.net/11104/0204704