Phân Tích So Sánh Các Tham Số Cấu Trúc Protein
Tóm tắt
Có một số phương pháp hiện có để so sánh các cấu trúc protein. Các phương pháp này đã được phân tích về hiệu suất trong việc xác định các protein có liên quan về cấu trúc/evolutionary, nhưng cho đến nay vẫn chưa có nhiều sự chú ý vào việc so sánh khách quan giữa các phân bố được tạo ra từ những phương pháp khác nhau.
Chúng tôi đã phân tích và so sánh các phân bố cấu trúc thu được từ các phương pháp khác nhau sử dụng ba bộ cặp protein có liên quan cấu trúc. Bộ đầu tiên tương ứng với 355 cặp protein đồng dạng xa theo cơ sở dữ liệu SCOP (bộ ASTRAL40). Bộ thứ hai được lấy từ cơ sở dữ liệu SISYPHUS và bao gồm 69 cặp protein (bộ SISY). Bộ thứ ba gồm 40 cặp khó khăn trong việc so khớp (bộ RIPC). Phân bố của các cặp trong bộ này yêu cầu các indel có số lượng và kích thước đáng kể và một số protein có liên quan bởi các hoán vị vòng tròn, cho thấy tính biến đổi cấu hình rộng rãi hoặc bao gồm các lặp lại. Hai phương pháp tiêu chuẩn (CE và DALI) đã được áp dụng để so khớp các protein trong bộ ASTRAL40. Mức độ tương đồng cấu trúc được xác định bởi cả hai phương pháp là rất tương quan và các phân bố từ hai phương pháp đồng ý với nhau trên trung bình hơn một nửa các vị trí đã được so khớp. CE, DALI, cũng như bốn phương pháp bổ sung khác (FATCAT, MATRAS, C
Các phân bố được tạo ra bởi các phương pháp khác nhau có xu hướng đồng ý ở mức độ đáng kể, nhưng sự đồng ý thấp hơn cho các cặp khó khăn hơn. Các kết quả cho việc so sánh với các phân bố tham chiếu là đáng khích lệ, nhưng cũng chỉ ra rằng vẫn còn chỗ để cải thiện.
Từ khóa
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