TMpred output for unknown
1-B-6@^pN̖ђʗ̗̈\

Sequence: MAI...QES, length: 502
Prediction parameters: TM-helix length between 17 and 33

1.) Possible transmembrane helices

The sequence positions in brackets denominate the core region.
Only scores above 500 are considered significant.
Inside to outside helices :  12 found
      from        to    score center
   8 (   8)  26 (  24)   2737     16
  58 (  61)  82 (  78)   1550     70
 127 ( 130) 149 ( 149)   2571    139
 168 ( 168) 186 ( 186)   1912    176
 192 ( 192) 209 ( 209)   2277    201
 232 ( 232) 250 ( 248)   1962    240
 276 ( 276) 293 ( 293)   2603    285
 320 ( 322) 339 ( 339)   2066    330
 373 ( 373) 392 ( 389)   1729    381
 397 ( 400) 418 ( 418)   2337    408
 429 ( 435) 453 ( 451)   1760    443
 455 ( 455) 473 ( 473)   1924    463

Outside to inside helices :  12 found
      from        to    score center
   8 (   8)  26 (  26)   2645     16
  59 (  59)  82 (  76)   1591     68
 124 ( 124) 142 ( 142)   2234    134
 162 ( 166) 183 ( 183)   1914    175
 191 ( 191) 207 ( 207)   2209    199
 232 ( 232) 250 ( 250)   1608    240
 278 ( 278) 294 ( 294)   2707    286
 324 ( 324) 342 ( 342)   2144    334
 371 ( 371) 391 ( 391)   2201    381
 403 ( 403) 423 ( 421)   2383    413
 428 ( 428) 444 ( 444)   1521    436
 455 ( 457) 473 ( 473)   2166    465

2.) Table of correspondences

Here is shown, which of the inside->outside helices correspond to which of the outside->inside helices.
Helices shown in brackets are considered insignificant.
A "+"-symbol indicates a preference of this orientation.
A "++"-symbol indicates a strong preference of this orientation.
 
           inside->outside | outside->inside
     8-  26 (19) 2737  +   |     8-  26 (19) 2645      
    58-  82 (25) 1550      |    59-  82 (24) 1591      
   127- 149 (23) 2571 ++   |   124- 142 (19) 2234      
   168- 186 (19) 1912      |   162- 183 (22) 1914      
   192- 209 (18) 2277      |   191- 207 (17) 2209      
   232- 250 (19) 1962 ++   |   232- 250 (19) 1608      
   276- 293 (18) 2603      |   278- 294 (17) 2707  +   
   320- 339 (20) 2066      |   324- 342 (19) 2144      
   373- 392 (20) 1729      |   371- 391 (21) 2201 ++   
   397- 418 (22) 2337      |   403- 423 (21) 2383      
   429- 453 (25) 1760 ++   |   428- 444 (17) 1521      
   455- 473 (19) 1924      |   455- 473 (19) 2166 ++

3.) Suggested models for transmembrane topology

These suggestions are purely speculative and should be used with extreme caution since they are based on the assumption that all transmembrane helices have been found.
In most cases, the Correspondence Table shown above or the prediction plot that is also created should be used for the topology assignment of unknown proteins.

2 possible models considered, only significant TM-segments used

-----> STRONGLY prefered model: N-terminus inside
12 strong transmembrane helices, total score :      25483
 # from   to length score orientation
 1    8   26 (19)    2737 i-o
 2   59   82 (24)    1591 o-i
 3  127  149 (23)    2571 i-o
 4  162  183 (22)    1914 o-i
 5  192  209 (18)    2277 i-o
 6  232  250 (19)    1608 o-i
 7  276  293 (18)    2603 i-o
 8  324  342 (19)    2144 o-i
 9  373  392 (20)    1729 i-o
10  403  423 (21)    2383 o-i
11  429  453 (25)    1760 i-o
12  455  473 (19)    2166 o-i

------> alternative model
12 strong transmembrane helices, total score :      25268
 # from   to length score orientation
 1    8   26 (19)    2645 o-i
 2   58   82 (25)    1550 i-o
 3  124  142 (19)    2234 o-i
 4  168  186 (19)    1912 i-o
 5  191  207 (17)    2209 o-i
 6  232  250 (19)    1962 i-o
 7  278  294 (17)    2707 o-i
 8  320  339 (20)    2066 i-o
 9  371  391 (21)    2201 o-i
10  397  418 (22)    2337 i-o
11  428  444 (17)    1521 o-i
12  455  473 (19)    1924 i-o



Kakunori Tanaka

Last modified: Thu May20 1998