diff --git a/jerry-core/debugger/debugger.c b/jerry-core/debugger/debugger.c
index be5513a38..3f9ed5b44 100644
--- a/jerry-core/debugger/debugger.c
+++ b/jerry-core/debugger/debugger.c
@@ -39,7 +39,7 @@ typedef struct
  */
 JERRY_STATIC_ASSERT (JERRY_DEBUGGER_MESSAGES_OUT_MAX_COUNT == 28
                      && JERRY_DEBUGGER_MESSAGES_IN_MAX_COUNT == 19
-                     && JERRY_DEBUGGER_VERSION == 5,
+                     && JERRY_DEBUGGER_VERSION == 6,
                      debugger_version_correlates_to_message_type_count);
 
 /**
@@ -880,10 +880,18 @@ jerry_debugger_send_configuration (uint8_t max_message_size) /**< maximum messag
   endian_data.uint16_value = 1;
 
   configuration_p->type = JERRY_DEBUGGER_CONFIGURATION;
+  configuration_p->configuration = 0;
+
+  if (endian_data.uint8_value[0] == 1)
+  {
+    configuration_p->configuration |= (uint8_t) JERRY_DEBUGGER_LITTLE_ENDIAN;
+  }
+
+  uint32_t version = JERRY_DEBUGGER_VERSION;
+  memcpy (configuration_p->version, &version, sizeof (uint32_t));
+
   configuration_p->max_message_size = max_message_size;
   configuration_p->cpointer_size = sizeof (jmem_cpointer_t);
-  configuration_p->little_endian = (endian_data.uint8_value[0] == 1);
-  configuration_p->version = JERRY_DEBUGGER_VERSION;
 
   return jerry_debugger_send (sizeof (jerry_debugger_send_configuration_t));
 } /* jerry_debugger_send_configuration */
diff --git a/jerry-core/debugger/debugger.h b/jerry-core/debugger/debugger.h
index ff5a37aa5..5b1db9848 100644
--- a/jerry-core/debugger/debugger.h
+++ b/jerry-core/debugger/debugger.h
@@ -26,7 +26,7 @@
 /**
  * JerryScript debugger protocol version.
  */
-#define JERRY_DEBUGGER_VERSION (5)
+#define JERRY_DEBUGGER_VERSION (6)
 
 /**
  * Frequency of calling jerry_debugger_receive() by the VM.
@@ -191,6 +191,14 @@ typedef enum
   JERRY_DEBUGGER_MESSAGES_IN_MAX_COUNT, /**< number of different type of input messages */
 } jerry_debugger_header_type_t;
 
+/**
+ * Debugger option flags.
+ */
+typedef enum
+{
+  JERRY_DEBUGGER_LITTLE_ENDIAN = 1u << 0, /**< little endian */
+} jerry_debugger_configuration_flags_t;
+
 /**
  * Subtypes of eval.
  */
@@ -250,10 +258,10 @@ typedef struct
 typedef struct
 {
   uint8_t type; /**< type of the message */
+  uint8_t configuration; /**< configuration option bits */
+  uint8_t version[sizeof (uint32_t)]; /**< debugger version */
   uint8_t max_message_size; /**< maximum incoming message size */
   uint8_t cpointer_size; /**< size of compressed pointers */
-  uint8_t little_endian; /**< little endian machine */
-  uint8_t version; /**< debugger version */
 } jerry_debugger_send_configuration_t;
 
 /**
diff --git a/jerry-debugger/jerry_client_ws.py b/jerry-debugger/jerry_client_ws.py
index ff24e8487..246e3762f 100644
--- a/jerry-debugger/jerry_client_ws.py
+++ b/jerry-debugger/jerry_client_ws.py
@@ -24,7 +24,7 @@ import struct
 import sys
 
 # Expected debugger protocol version.
-JERRY_DEBUGGER_VERSION = 5
+JERRY_DEBUGGER_VERSION = 6
 
 # Messages sent by the server to client.
 JERRY_DEBUGGER_CONFIGURATION = 1
@@ -55,6 +55,9 @@ JERRY_DEBUGGER_WAIT_FOR_SOURCE = 25
 JERRY_DEBUGGER_OUTPUT_RESULT = 26
 JERRY_DEBUGGER_OUTPUT_RESULT_END = 27
 
+# Debugger option flags
+JERRY_DEBUGGER_LITTLE_ENDIAN = 0x1
+
 # Subtypes of eval
 JERRY_DEBUGGER_EVAL_EVAL = "\0"
 JERRY_DEBUGGER_EVAL_THROW = "\1"
@@ -308,14 +311,14 @@ class JerryDebugger(object):
         else:
             result = b""
 
-        len_expected = 7
+        len_expected = 10
         # Network configurations, which has the following struct:
         # header [2] - opcode[1], size[1]
         # type [1]
+        # configuration [1]
+        # version [4]
         # max_message_size [1]
         # cpointer_size [1]
-        # little_endian [1]
-        # version [1]
 
         while len(result) < len_expected:
             result += self.client_socket.recv(1024)
@@ -324,21 +327,15 @@ class JerryDebugger(object):
 
         expected = struct.pack("BBB",
                                WEBSOCKET_BINARY_FRAME | WEBSOCKET_FIN_BIT,
-                               5,
+                               8,
                                JERRY_DEBUGGER_CONFIGURATION)
 
         if result[0:3] != expected:
             raise Exception("Unexpected configuration")
 
-        self.max_message_size = ord(result[3])
-        self.cp_size = ord(result[4])
-        self.little_endian = ord(result[5])
-        self.version = ord(result[6])
-
-        if self.version != JERRY_DEBUGGER_VERSION:
-            raise Exception("Incorrect debugger version from target: %d expected: %d" %
-                            (self.version, JERRY_DEBUGGER_VERSION))
-
+        self.little_endian = ord(result[3]) & JERRY_DEBUGGER_LITTLE_ENDIAN
+        self.max_message_size = ord(result[8])
+        self.cp_size = ord(result[9])
 
         if self.little_endian:
             self.byte_order = "<"
@@ -354,6 +351,11 @@ class JerryDebugger(object):
 
         self.idx_format = "I"
 
+        self.version = struct.unpack(self.byte_order + self.idx_format, result[4:8])[0]
+        if self.version != JERRY_DEBUGGER_VERSION:
+            raise Exception("Incorrect debugger version from target: %d expected: %d" %
+                            (self.version, JERRY_DEBUGGER_VERSION))
+
         logging.debug("Compressed pointer size: %d", self.cp_size)
 
         if len_result > len_expected: