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 (
    6763, 6761, 4583, 4591, 5943, 4869, 4870, 
    4871, 4882, 4873, 4880, 4858, 7105, 
    7099, 7085, 7107, 7083, 7127, 7131, 
    7114, 5780, 5781, 5589, 6951, 6324, 
    4579, 4580, 5419, 5180, 5420, 5711, 
    5714, 5866, 6033, 5157, 4749, 5636, 
    6408, 7427, 6387, 4969, 4968, 5721, 
    7641, 2626, 2627, 5784, 5782
  ) 
  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 0.00126

JSON explain

{
  "query_block": {
    "select_id": 1,
    "cost_info": {
      "query_cost": "34.06"
    },
    "grouping_operation": {
      "using_filesort": false,
      "table": {
        "table_name": "cscart_product_prices",
        "access_type": "range",
        "possible_keys": [
          "usergroup",
          "product_id",
          "lower_limit",
          "usergroup_id"
        ],
        "key": "product_id",
        "used_key_parts": [
          "product_id"
        ],
        "key_length": "3",
        "rows_examined_per_scan": 49,
        "rows_produced_per_join": 9,
        "filtered": "19.12",
        "index_condition": "(`dbggbern`.`cscart_product_prices`.`product_id` in (6763,6761,4583,4591,5943,4869,4870,4871,4882,4873,4880,4858,7105,7099,7085,7107,7083,7127,7131,7114,5780,5781,5589,6951,6324,4579,4580,5419,5180,5420,5711,5714,5866,6033,5157,4749,5636,6408,7427,6387,4969,4968,5721,7641,2626,2627,5784,5782))",
        "cost_info": {
          "read_cost": "33.12",
          "eval_cost": "0.94",
          "prefix_cost": "34.06",
          "data_read_per_join": "224"
        },
        "used_columns": [
          "product_id",
          "price",
          "percentage_discount",
          "lower_limit",
          "usergroup_id"
        ],
        "attached_condition": "((`dbggbern`.`cscart_product_prices`.`lower_limit` = 1) and (`dbggbern`.`cscart_product_prices`.`usergroup_id` in (0,1)))"
      }
    }
  }
}