System.IO.FileNotFoundException: ASP.NET MVC Core 1.0 Website not Working IIS

I have been trying to run a website built on MVC6 on IIS 7 in Windows 7 x64.

I followed all the steps closely on the ASP.NET Documentation regarding publishing to IIS. But I cannot make the website working. The stdout log has the following error:

System.IO.FileNotFoundException: Could not load file or assembly 'Microsoft.Extensions.Configuration.EnvironmentVariables, Version=1.0.0.0, Culture=neutral, PublicKeyToken=adb9793829ddae60' or one of its dependencies. The system cannot find the path specified.
File name: 'Microsoft.Extensions.Configura
tion.EnvironmentVariables, Version=1.0.0.0, Culture=neutral, PublicKeyToken=adb9793829ddae60' ---> System.IO.DirectoryNotFoundException: The system cannot find the path specified. (Exception from HRESULT: 0x80070003)
   at System.Runtime.Loader.AssemblyLoadContext.LoadFromPath(IntPtr ptrNativeAssemblyLoadContext, String ilPath, String niPath, ObjectHandleOnStack retAssembly)
   at System.Runtime.Loader.AssemblyLoadContext.LoadFromAssemblyPath(String assemblyPath)
   at Microsoft.Dnx.Runtime.Loader.PackageAssemblyLoader.Load(AssemblyName assemblyName, IAssemblyLoadContext loadContext)
   at Microsoft.Dnx.Host.LoaderContainer.Load(AssemblyName assemblyName)
   at Microsoft.Dnx.Runtime.Loader.AssemblyLoaderCache.GetOrAdd(AssemblyName name, Func`2 factory)
   at System.Runtime.Loader.AssemblyLoadContext.LoadFromAssemblyName(AssemblyName assemblyName)
   at System.Runtime.Loader.AssemblyLoadContext.Resolve(IntPtr gchManagedAssemblyLoadContext, AssemblyName assemblyName)
   at Microsoft.AspNet.Hosting.WebApplication.Run(Type startupType, String[] args)
   at Microsoft.AspNet.Server.Kestrel.Program.Main(String[] args)
--- End of stack trace from previous location where exception was thrown ---
   at System.Runtime.ExceptionServices.ExceptionDispatchInfo.Throw()
   at Microsoft.Dnx.Runtime.Common.EntryPointExecutor.Execute(Assembly assembly, String[] args, IServiceProvider serviceProvider)
   at System.Threading.Tasks.Task`1.InnerInvoke()
   at System.Threading.Tasks.Task.Execute()
System.IO.DirectoryNotFoundException: The system cannot find the path specified. (Exception from HRESULT: 0x80070003)
   at System.Runtime.Loader.AssemblyLoadContext.LoadFromPath(IntPtr ptrNativeAssemblyLoadContext, String ilPath, String niPath, ObjectHandleOnStack retAssembly)
   at System.Runtime.Loader.AssemblyLoadContext.LoadFromAssemblyPath(String assemblyPath)
   at Microsoft.Dnx.Runtime.Loader.PackageAssemblyLoader.Load(AssemblyName assemblyName, IAssemblyLoadContext loadContext)
   at Microsoft.Dnx.Host.LoaderContainer.Load(AssemblyName assemblyName)
   at Microsoft.Dnx.Runtime.Loader.AssemblyLoaderCache.GetOrAdd(AssemblyName name, Func`2 factory)
   at System.Runtime.Loader.AssemblyLoadContext.LoadFromAssemblyName(AssemblyName assemblyName)
   at System.Runtime.Loader.AssemblyLoadContext.Resolve(IntPtr gchManagedAssemblyLoadContext, AssemblyName assemblyName)

I have given IIS_USRS all rights on the PublishOutput folder. Running the web.cmd returns the same error! I have tried to find it, but to no luck.

Note: I am using coreclr 1.0.0-rc1-update1 x64. The project is working fine when run locally on IIS Express.

UPDATE 1:

The problem is some what similar to this issue on Github. But the solution is not that which is mentioned in my case.

UPDATE 2: My project.json:

{
  "userSecretsId": "aspnet5-QMS.Identity.Test-a8974d85-8259-4653-be08-47e9a674ac6c",
  "version": "1.0.0-*",
  "compilationOptions": {
    "emitEntryPoint": true
  },

  "dependencies": {
    "EntityFramework.Commands": "7.0.0-rc1-final",
    "EntityFramework.MicrosoftSqlServer": "7.0.0-rc1-final",
    "Microsoft.AspNet.Authentication.Cookies": "1.0.0-rc1-final",
    "Microsoft.AspNet.Diagnostics.Entity": "7.0.0-rc1-final",
    "Microsoft.AspNet.Identity.EntityFramework": "3.0.0-rc1-final",
    "Microsoft.AspNet.IISPlatformHandler": "1.0.0-rc1-final",
    "Microsoft.AspNet.Mvc": "6.0.0-rc1-final",
    "Microsoft.AspNet.Mvc.TagHelpers": "6.0.0-rc1-final",
    "Microsoft.AspNet.Server.Kestrel": "1.0.0-rc1-final",
    "Microsoft.AspNet.StaticFiles": "1.0.0-rc1-final",
    "Microsoft.AspNet.Tooling.Razor": "1.0.0-rc1-final",
    "Microsoft.Extensions.CodeGenerators.Mvc": "1.0.0-rc1-final",
    "Microsoft.Extensions.Configuration.FileProviderExtensions": "1.0.0-rc1-final",
    "Microsoft.Extensions.Configuration.Json": "1.0.0-rc1-final",
    "Microsoft.Extensions.Configuration.UserSecrets": "1.0.0-rc1-final",
    "Microsoft.Extensions.Logging": "1.0.0-rc1-final",
    "Microsoft.Extensions.Logging.Console": "1.0.0-rc1-final",
    "Microsoft.Extensions.Logging.Debug": "1.0.0-rc1-final",
    "Microsoft.VisualStudio.Web.BrowserLink.Loader": "14.0.0-rc1-final",
    "Microsoft.Dnx.Watcher": "1.0.0-rc1-final",
    "Microsoft.AspNet.Authentication.JwtBearer": "1.0.0-rc1-final",
    "IdentityServer3.Integration.AspNet": "1.0.0-rc1",
    "IdentityServer3.EntityFramework": "2.0.0-rc1",
    "IdentityServer3.AccessTokenValidation": "2.0.0-rc1"
  },

  "commands": {
    "web": "Microsoft.AspNet.Server.Kestrel",
    "ef": "EntityFramework.Commands",
    "watch": "Microsoft.Dnx.Watcher"
  },

  "frameworks": {
    "dnx451": { }
  },

  "exclude": [
    "wwwroot",
    "node_modules"
  ],
  "publishExclude": [
    "**.user",
    "**.vspscc"
  ],
  "scripts": {
    "prepublish": [ "npm install", "bower install", "gulp clean", "gulp min" ]
  }
}