|
Comparison of prediction of helix orientation for structure-based and computationally predicted helices in Leu transporter LeuTAa from Aquifex aeolicus (PDB ID: 2A65). |
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| TM Helix |
Source |
First Residue Number |
TM helix sequence |
LIPS prediction |
|
|
||||
| 1 |
Struct |
15 |
ILAMAGNAVGLGNFLRFPVQ |
Buried |
| TMHMM |
7 |
HWATRLGLILAMAGNAVGLGNF |
||
| 2 |
Struct |
41 |
GAFMIPYIIAFLLVGIPLMW |
Correct |
| TMHMM |
39 |
GGGAFMIPYIIAFLLVGIPLMWI |
Correct |
|
| 3 |
Struct |
92 |
ILGVFGLWIPLVVAIYYVYIESWTLGFAIK |
Correct |
| TMHMM |
89 |
FAKILGVFGLWIPLVVAIYYVYI |
Correct |
|
| 4 |
Struct |
166 |
LFAYIVFLITMFINVSILI |
Correct |
| TMHMM |
165 |
SLFAYIVFLITMFINVSILIRGI |
2nd best |
|
| 5 |
Struct |
193 |
RFAKIAMPTLFILAVFLVIR |
Wrong |
| TMHMM |
194 |
FAKIAMPTLFILAVFLVIRVFLL |
Wrong |
|
| 6 |
Struct |
241 |
PGVWIAAVGQIFFTLSLGFGAI |
Buried |
| TMHMM |
243 |
VWIAAVGQIFFTLSLGFGAIITY |
||
| 7 |
Struct |
279 |
GLTAATLNEKAEVILGGSI |
Correct |
| TMHMM |
293 |
LGGSISIPAAVAFFGVANAVAIA |
* |
|
| 8 |
Struct |
342 |
FLWFFLLFFAGLTSSIAIMQPMI |
Correct |
| TMHMM |
335 |
AGGTFLGFLWFFLLFFAGLTSSI |
Correct |
|
| 9 |
Struct |
379 |
VLWTAAIVFFSAHLVMFL |
Wrong |
| TMHMM |
378 |
AVLWTAAIVFFSAHLVMF |
Correct |
|
| 10 |
Struct |
398 |
KSLDEMDFWAGTIGVVFFGLTELI |
Correct |
| TMHMM |
405 |
FWAGTIGVVFFGLTELIIFFWIF |
Correct |
|
| 11 |
Struct |
450 |
YVMRYITPAFLAVLLVVWAREYI |
Correct |
| TMHMM |
447 |
IYYYVMRYITPAFLAVLLVVWAR |
Correct |
|
| 12 |
Struct |
482 |
TVWITRFYIIGLFLFLTF |
2nd best |
| TMHMM |
484 |
WITRFYIIGLFLFLTFLVFL |
2nd best |
|
|
* Predicted and structure-based TM helices have little overlap. | ||||
Adamian and Liang BMC Structural Biology 2006 6:13 doi:10.1186/1472-6807-6-13 |
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