| # | Rider | Team | Time | Gap |
|---|---|---|---|---|
| 1 | Rui Costa | Caisse d'Epargne | 03:27:21 | |
| 2 | Joan Horrach | Team Katusha | + 02 | + 02 |
| 3 | Iván Gutiérrez | Caisse d'Epargne | + 07 | + 07 |
| 4 | Aitor Perez Arrieta | Footon-Servetto | + 07 | + 07 |
| 5 | Joaquin Rojas José | Caisse d'Epargne | + 07 | + 07 |
| 6 | Kim Kirchen | Team Katusha | + 07 | + 07 |
| 7 | Benat Intxausti | Euskaltel-Euskadi | + 07 | + 07 |
| 8 | Manuel Vazquez | Andalucía - Cajasur | + 07 | + 07 |
| 9 | Rafael Valls | Footon-Servetto | + 07 | + 07 |
| 10 | Eduard Vorganov | Team Katusha | + 07 | + 07 |
| 11 | Jelle Vanendert | Omega Pharma-Lotto | + 07 | + 07 |
| 12 | Rubén Plaza | Caisse d'Epargne | + 07 | + 07 |
| 13 | Dries Devenyns | Quick Step | + 07 | + 07 |
| 14 | Christian Knees | Team Milram | + 07 | + 07 |
| 15 | Jurgen van den Broeck | Omega Pharma-Lotto | + 07 | + 07 |
| 16 | Fabio Felline | Footon-Servetto | + 07 | + 07 |
| 17 | Eros Capecchi | Footon-Servetto | + 07 | + 07 |
| 18 | Maxime Vantomme | Team Katusha | + 07 | + 07 |
| 19 | Maxime Monfort | Team HTC - Columbia | + 07 | + 07 |
| 20 | Mikel Landa | Orbea | + 07 | + 07 |
| 21 | Amets Txurruka | Euskaltel-Euskadi | + 07 | + 07 |
| 22 | Fränk Schleck | Team Saxo Bank | + 07 | + 07 |
| 23 | Alexandre Botcharov | Team Katusha | + 07 | + 07 |
| 24 | Laurens ten Dam | Rabobank | + 07 | + 07 |
| 25 | Matthias Brändle | Footon-Servetto | + 07 | + 07 |
| 26 | Jens Voigt | Team Saxo Bank | + 07 | + 07 |
| 27 | Markus Eibegger | Footon-Servetto | + 07 | + 07 |
| 28 | Rodrigo Garcia Rena | Xacobeo-Galicia | + 07 | + 07 |
| 29 | Jean-christophe Péraud | Omega Pharma-Lotto | + 07 | + 07 |
| 30 | Alexandr Kolobnev | Team Katusha | + 07 | + 07 |
| 31 | Linus Gerdemann | Team Milram | + 07 | + 07 |
| 32 | Angel Madrazo | Caisse d'Epargne | + 07 | + 07 |
| 33 | Egor Silin | Team Katusha | + 07 | + 07 |
| 34 | Francis de Greef | Omega Pharma-Lotto | + 17 | + 17 |
| 35 | Markus Fothen | Team Milram | + 21 | + 21 |
| 36 | Rein Taaramäe | Cofidis | + 01:00 | + 01:00 |
| 37 | Vicente Reynès | Team HTC - Columbia | + 01:07 | + 01:07 |
| 38 | José Oroz Juan | Euskaltel-Euskadi | + 01:20 | + 01:20 |
| 39 | Mikel Nieve | Euskaltel-Euskadi | + 01:20 | + 01:20 |
| 40 | David Gutierrez Palacios | Footon-Servetto | + 01:20 | + 01:20 |
| 41 | Daniel Moreno | Omega Pharma-Lotto | + 01:53 | + 01:53 |
| 42 | Dario Cataldo | Quick Step | + 02:00 | + 02:00 |
| 43 | Rikke Dijkxhoorn | Van Vliet - EBH - Elshof | + 02:29 | + 02:29 |
| 44 | Carlos Torrent | + 02:30 | + 02:30 | |
| 45 | Tassilo Fricke | Team NetApp | + 02:30 | + 02:30 |
| 46 | Raul Santamarta Valvuena | Burgos 2016 - Castilla y Leon | + 02:30 | + 02:30 |
| 47 | Ivan Velasco | Euskaltel-Euskadi | + 02:33 | + 02:33 |
| 48 | Angel Vicioso | Andalucía - Cajasur | + 02:33 | + 02:33 |
| 49 | Fabian Wegmann | Team Milram | + 02:33 | + 02:33 |
| 50 | Johannes Fröhlinger | Team Milram | + 02:33 | + 02:33 |
| 51 | Bram Tankink | Rabobank | + 02:33 | + 02:33 |
| 52 | Javier Moreno | Andalucía - Cajasur | + 02:33 | + 02:33 |
| 53 | Gregory Brenes | Burgos 2016 - Castilla y Leon | + 03:00 | + 03:00 |
| 54 | Paul Voss | Team Milram | + 03:25 | + 03:25 |
| 55 | Arnold Jeannesson | Caisse d'Epargne | + 03:25 | + 03:25 |
| 56 | Igor Anton | Euskaltel-Euskadi | + 03:25 | + 03:25 |
| 57 | Serafín Martinez | Xacobeo-Galicia | + 03:25 | + 03:25 |
| 58 | Rubén Pérez Moreno | Euskaltel-Euskadi | + 03:25 | + 03:25 |
| 59 | Romain Zingle | Cofidis | + 03:25 | + 03:25 |
| 60 | Giampaolo Cheula | Footon-Servetto | + 03:25 | + 03:25 |
| 61 | Sylvain Chavanel | Quick Step | + 04:30 | + 04:30 |
| 62 | Jérôme Pineau | Quick Step | + 04:30 | + 04:30 |
| 63 | Davide Malacarne | Quick Step | + 04:30 | + 04:30 |
| 64 | Pascual Orengo Lopez | Burgos 2016 - Castilla y Leon | + 04:54 | + 04:54 |
| 65 | Vladimir Karpets | Team Katusha | + 04:54 | + 04:54 |
| 66 | Antonio Piedra | Andalucía - Cajasur | + 04:54 | + 04:54 |
| 67 | Rasmus Guldhammer | Team HTC - Columbia | + 04:54 | + 04:54 |
| 68 | Anker Sørensen Chris | Team Saxo Bank | + 04:54 | + 04:54 |
| 69 | Carlos Lara Arjonilla Jose | Burgos 2016 - Castilla y Leon | + 04:54 | + 04:54 |
| 70 | Tom Stamsnijder | Rabobank | + 04:54 | + 04:54 |
| 71 | David Francisco Delgado | Burgos 2016 - Castilla y Leon | + 04:54 | + 04:54 |
| 72 | David Arroyo | Caisse d'Epargne | + 06:01 | + 06:01 |
| 73 | Sergio Escobar Roure | + 06:01 | + 06:01 | |
| 74 | Xabier Zandio | Caisse d'Epargne | + 06:01 | + 06:01 |
| 75 | Gorka Verdugo | Euskaltel-Euskadi | + 08:02 | + 08:02 |
| 76 | Ronan van Zandbeek | Skil - Shimano | + 08:19 | + 08:19 |
| 77 | Charles Wegelius | Omega Pharma-Lotto | + 08:29 | + 08:29 |
| 78 | Jan Bakelants | Omega Pharma-Lotto | + 08:30 | + 08:30 |