SELECT 
  cscart_product_prices.product_id, 
  MIN(
    IF(
      cscart_product_prices.percentage_discount = 0, 
      cscart_product_prices.price, 
      cscart_product_prices.price - (
        cscart_product_prices.price * cscart_product_prices.percentage_discount
      )/ 100
    )
  ) AS price 
FROM 
  cscart_product_prices 
WHERE 
  cscart_product_prices.product_id IN (
    245, 238, 239, 74, 73, 71, 75, 72, 70, 76, 
    67, 86, 106, 105, 101, 69, 125, 120, 117, 
    113, 331, 335, 339, 341, 355, 356, 357, 
    358, 359, 360, 361, 362, 363, 364, 365, 
    366, 367, 368, 369, 370, 379, 380, 381, 
    382, 383, 384, 385, 386, 387, 388, 389, 
    390, 391, 392, 393, 394, 395, 396, 397, 
    398, 399, 400, 401, 402, 403, 404, 405, 
    406, 407, 408, 409, 410, 411, 412, 413, 
    414, 415, 416, 417, 418, 419, 420, 421, 
    422, 423, 424, 425, 426, 68
  ) 
  AND cscart_product_prices.lower_limit = 1 
  AND cscart_product_prices.usergroup_id IN (0, 1) 
GROUP BY 
  cscart_product_prices.product_id

Query time 0.00109

JSON explain

{
  "query_block": {
    "select_id": 1,
    "cost_info": {
      "query_cost": "258.45"
    },
    "grouping_operation": {
      "using_temporary_table": true,
      "using_filesort": true,
      "cost_info": {
        "sort_cost": "178.00"
      },
      "table": {
        "table_name": "cscart_product_prices",
        "access_type": "ALL",
        "possible_keys": [
          "usergroup",
          "product_id",
          "lower_limit",
          "usergroup_id"
        ],
        "rows_examined_per_scan": 383,
        "rows_produced_per_join": 178,
        "filtered": "46.48",
        "cost_info": {
          "read_cost": "44.86",
          "eval_cost": "35.60",
          "prefix_cost": "80.46",
          "data_read_per_join": "4K"
        },
        "used_columns": [
          "product_id",
          "price",
          "percentage_discount",
          "lower_limit",
          "usergroup_id"
        ],
        "attached_condition": "((`pankajecarter_systemfour`.`cscart_product_prices`.`lower_limit` = 1) and (`pankajecarter_systemfour`.`cscart_product_prices`.`product_id` in (245,238,239,74,73,71,75,72,70,76,67,86,106,105,101,69,125,120,117,113,331,335,339,341,355,356,357,358,359,360,361,362,363,364,365,366,367,368,369,370,379,380,381,382,383,384,385,386,387,388,389,390,391,392,393,394,395,396,397,398,399,400,401,402,403,404,405,406,407,408,409,410,411,412,413,414,415,416,417,418,419,420,421,422,423,424,425,426,68)) and (`pankajecarter_systemfour`.`cscart_product_prices`.`usergroup_id` in (0,1)))"
      }
    }
  }
}