TransMembrane prediction using Hidden Markov Models for Rv0035




Residue number
and Amino Acid
Probabilities
InsideMembraneOutside
1 M0.020580.000000.97942
2 T0.020580.000000.97942
3 A0.020580.000000.97942
4 A0.020580.000000.97941
5 L0.020580.000000.97941
6 L0.020580.000000.97941
7 S0.020580.000000.97941
8 P0.020580.000000.97941
9 A0.020580.000000.97941
10 I0.020580.000000.97941
11 A0.020580.000000.97941
12 W0.020580.000000.97941
13 Q0.020580.000000.97941
14 Q0.020580.000000.97941
15 I0.020580.000000.97941
16 S0.020580.000000.97941
17 A0.020580.000000.97941
18 C0.020580.000000.97941
19 T0.020580.000000.97941
20 D0.020580.000000.97941
21 R0.020580.000000.97941
22 T0.020580.000000.97941
23 L0.020580.000000.97941
24 T0.020580.000000.97942
25 I0.020580.000000.97942
26 T0.020580.000000.97942
27 C0.020580.000000.97942
28 E0.020580.000000.97942
29 D0.020580.000000.97942
30 S0.020580.000000.97942
31 E0.020580.000000.97942
32 V0.020580.000000.97942
33 I0.020580.000000.97942
34 S0.020580.000000.97942
35 Y0.020580.000000.97942
36 Q0.020580.000000.97942
37 D0.020580.000000.97942
38 L0.020580.000000.97942
39 I0.020580.000000.97942
40 A0.020580.000000.97942
41 R0.020580.000000.97942
42 A0.020580.000000.97942
43 A0.020580.000000.97942
44 A0.020580.000000.97942
45 C0.020580.000000.97942
46 I0.020580.000000.97942
47 P0.020580.000000.97942
48 P0.020580.000000.97942
49 L0.020580.000000.97942
50 R0.020580.000000.97942
51 R0.020580.000000.97942
52 L0.020580.000000.97942
53 D0.020580.000000.97942
54 L0.020580.000000.97942
55 K0.020580.000000.97942
56 R0.020580.000010.97942
57 G0.020520.000080.97941
58 E0.020450.000150.9794
59 P0.019920.000750.97933
60 V0.017800.003010.97919
61 L0.016250.004980.97877
62 I0.016180.005230.9786
63 T0.016120.005350.97853
64 A0.015970.005540.97849
65 H0.015720.005860.97842
66 T0.015410.006290.9783
67 N0.015200.006560.97824
68 L0.014750.007170.97809
69 E0.014670.007250.97808
70 F0.013430.008620.97794
71 L0.013120.009030.97785
72 S0.013090.009070.97785
73 C0.013070.009100.97783
74 F0.013060.009140.9778
75 L0.013060.009140.9778
76 G0.013060.009150.97779
77 L0.013060.009150.97779
78 M0.013080.009110.97781
79 L0.013090.008950.97796
80 H0.013130.008540.97833
81 G0.013160.008290.97855
82 A0.013220.007780.97899
83 V0.013330.006060.98061
84 P0.013740.004070.98219
85 V0.013890.003680.98242
86 P0.014000.003350.98265
87 I0.014050.003160.98279
88 P0.014200.002260.98354
89 P0.014360.001530.98412
90 R0.014460.000800.98474
91 E0.014520.000480.985
92 A0.014520.000460.98502
93 L0.014570.000230.9852
94 K0.014680.000000.98531
95 T0.014690.000000.98531
96 T0.014690.000000.98531
97 E0.014690.000000.98531
98 R0.014690.000000.98531
99 F0.014690.000000.98531
100 M0.014690.000000.98531
101 T0.014690.000000.98531
102 R0.014690.000000.98531
103 L0.014690.000000.98531
104 G0.014690.000000.98531
105 P0.014690.000000.98531
106 L0.014690.000000.98531
107 L0.014690.000000.98531
108 R0.014690.000000.98531
109 H0.014690.000000.98531
110 H0.014690.000000.98531
111 R0.014690.000000.98531
112 V0.014690.000000.98531
113 L0.014690.000000.98531
114 I0.014690.000000.98531
115 C0.014690.000000.98531
116 T0.014690.000000.98531
117 P0.014690.000000.98531
118 A0.014690.000000.98531
119 E0.014690.000000.98531
120 H0.014690.000000.98531
121 D0.014690.000000.98531
122 E0.014690.000000.98531
123 I0.014690.000000.98531
124 R0.014690.000000.98531
125 A0.014690.000000.98531
126 A0.014690.000000.98531
127 A0.014690.000000.98531
128 S0.014690.000000.98531
129 T0.014690.000000.98531
130 D0.014690.000000.98531
131 C0.014690.000000.98531
132 Q0.014690.000000.98531
133 I0.014690.000000.98531
134 S0.014690.000000.98531
135 R0.014690.000000.98531
136 F0.014690.000000.98531
137 T0.014690.000000.98531
138 A0.014690.000000.98531
139 L0.014690.000000.98531
140 A0.014690.000000.98531
141 E0.014690.000000.98531
142 A0.014690.000000.98531
143 G0.014690.000000.98531
144 D0.014690.000000.98531
145 E0.014690.000000.98531
146 Q0.014690.000000.98531
147 F0.014690.000000.98531
148 G0.014690.000000.98531
149 R0.014690.000000.98531
150 A0.014690.000000.98531
151 T0.014690.000000.98531
152 A0.014690.000000.98531
153 Q0.014690.000000.98531
154 Q0.014690.000000.98531
155 L0.014690.000000.98531
156 A0.014690.000000.98531
157 D0.014690.000000.98531
158 T0.014690.000000.98531
159 A0.014690.000000.98531
160 T0.014690.000000.98531
161 A0.014690.000000.98531
162 D0.014690.000000.98531
163 W0.014690.000000.98531
164 P0.014690.000000.98531
165 L0.014690.000000.98531
166 C0.014690.000000.98531
167 T0.014690.000000.98531
168 L0.014690.000000.98531
169 D0.014690.000000.98531
170 D0.014690.000000.98531
171 D0.014690.000010.98531
172 A0.014680.000150.98516
173 Y0.014680.000270.98505
174 V0.014680.000300.98502
175 Q0.014680.000300.98502
176 Y0.014680.000310.98502
177 T0.014680.000310.985
178 S0.014680.000320.985
179 G0.014680.000320.985
180 S0.014680.000320.985
181 T0.014670.000330.98499
182 A0.014670.000340.98499
183 A0.014670.000340.98499
184 P0.014670.000340.98499
185 R0.014660.000340.98499
186 G0.014660.000360.98499
187 V0.014650.000360.98499
188 V0.014650.000370.98499
189 I0.014650.000370.98499
190 T0.014720.000290.98499
191 Y0.014730.000290.98499
192 R0.014770.000230.98499
193 N0.014780.000230.98499
194 L0.014780.000230.98499
195 L0.014800.000210.985
196 S0.014910.000090.985
197 N0.014940.000070.98499
198 M0.014940.000070.98499
199 R0.014940.000070.98499
200 A0.014940.000090.98497
201 M0.014940.000100.98496
202 A0.014940.000110.98495
203 V0.014940.000110.98495
204 G0.014950.000090.98496
205 S0.014950.000090.98497
206 Q0.014950.000080.98497
207 F0.014950.000080.98497
208 Q0.014950.000080.98497
209 H0.014950.000080.98498
210 G0.014950.000070.98498
211 D0.014950.000070.98498
212 V0.014910.000210.98488
213 M0.014900.000230.98487
214 G0.014900.000280.98483
215 S0.014870.000440.98468
216 W0.014810.001040.98415
217 L0.014740.001900.98337
218 P0.014730.002530.98274
219 L0.014690.005550.97975
220 H0.014700.006450.97885
221 H0.014640.007280.97807
222 D0.014470.009030.9765
223 M0.009820.022230.96796
224 G0.007950.026310.96573
225 L0.005080.030360.96457
226 V0.003370.033410.96321
227 G0.002870.035550.96158
228 S0.002770.035790.96144
229 L0.002560.036220.96121
230 F0.002470.036490.96104
231 A0.002440.036570.96099
232 A0.002420.036620.96096
233 L0.002420.036620.96096
234 F0.002440.036590.96096
235 N0.002580.036390.96102
236 S0.002620.036350.96103
237 V0.002730.036240.96103
238 S0.003190.035760.96105
239 A0.003860.035040.9611
240 V0.005090.033750.96116
241 F0.007890.030780.96133
242 T0.015520.022720.96176
243 T0.019720.016770.96351
244 P0.020660.014510.96482
245 H0.021290.012720.96599
246 R0.022480.008130.96939
247 F0.022390.007750.96986
248 L0.022730.005950.97133
249 Y0.024050.003120.97283
250 D0.026130.000380.9735
251 P0.026030.000670.9733
252 L0.024820.002550.97263
253 G0.023990.003730.97229
254 F0.022430.005980.9716
255 L0.022090.007290.97063
256 R0.022070.007510.97042
257 L0.021960.008580.96946
258 L0.021930.009020.96905
259 T0.021930.009080.96898
260 S0.021930.009150.96893
261 S0.021920.009280.96879
262 G0.021910.009470.96861
263 A0.021910.009560.96853
264 T0.021910.009570.96851
265 H0.021910.009560.96853
266 T0.021910.009550.96853
267 F0.021910.009520.96856
268 M0.021910.009430.96865
269 P0.021920.009290.9688
270 N0.021920.008810.96926
271 F0.021930.008750.96932
272 A0.021950.008490.96956
273 L0.022000.008100.96991
274 E0.022860.006360.97078
275 W0.023280.005630.97109
276 L0.023530.004860.97161
277 I0.024140.003360.9725
278 N0.025550.001530.97292
279 A0.025820.001230.97295
280 Y0.026500.000470.97304
281 H0.026830.000120.97305
282 R0.026920.000030.97306
283 R0.026930.000010.97306
284 G0.026930.000010.97306
285 A0.026930.000010.97306
286 D0.026940.000000.97306
287 I0.026940.000000.97306
288 E0.026940.000000.97306
289 G0.026940.000000.97306
290 I0.026940.000000.97306
291 D0.026940.000000.97306
292 L0.026940.000000.97306
293 H0.026940.000000.97306
294 K0.026940.000000.97306
295 M0.026940.000000.97306
296 R0.026940.000000.97306
297 R0.026940.000000.97306
298 L0.026940.000000.97306
299 I0.026940.000000.97306
300 I0.026940.000000.97306
301 A0.026940.000000.97306
302 S0.026940.000000.97306
303 E0.026940.000000.97306
304 P0.026940.000000.97306
305 V0.026940.000000.97306
306 H0.026940.000000.97306
307 A0.026940.000000.97306
308 E0.026930.000010.97306
309 G0.026890.000070.97303
310 M0.026840.000180.97298
311 R0.026740.000410.97285
312 R0.025940.002300.97177
313 F0.022980.007130.96989
314 A0.021930.009840.96823
315 A0.020490.012250.96725
316 T0.018890.014260.96685
317 F0.011650.021940.9664
318 A0.007660.026570.96576
319 G0.005260.029580.96516
320 V0.003520.031970.96451
321 G0.003390.032200.9644
322 L0.003360.032370.96427
323 A0.003360.032400.96425
324 P0.003360.032400.96424
325 T0.003350.032410.96424
326 A0.003350.032420.96422
327 L0.003350.032440.96422
328 G0.003350.032420.96423
329 S0.003350.032400.96425
330 G0.003350.032380.96426
331 Y0.003390.032270.96434
332 G0.003510.031980.96451
333 L0.004080.030490.96543
334 A0.005830.027630.96654
335 E0.008470.022080.96945
336 A0.009090.020090.97081
337 T0.009430.019210.97136
338 V0.009550.018580.97187
339 A0.009700.017110.97319
340 V0.009960.010240.97981
341 S0.010720.005000.98428
342 M0.011380.002230.98639
343 S0.011920.000460.98762
344 A0.012020.000260.98771
345 P0.012150.000080.98778
346 N0.012170.000030.98779
347 T0.012180.000030.98779
348 G0.012180.000020.9878
349 F0.012190.000020.9878
350 R0.012200.000000.9878
351 T0.012200.000000.9878
352 E0.012200.000000.9878
353 T0.012200.000000.9878
354 H0.012200.000000.9878
355 A0.012200.000000.9878
356 A0.012200.000000.9878
357 A0.012200.000000.9878
358 E0.012200.000000.9878
359 V0.012200.000000.9878
360 V0.012200.000000.9878
361 T0.012200.000000.9878
362 G0.012200.000000.9878
363 G0.012200.000000.9878
364 R0.012200.000000.9878
365 V0.012200.000000.9878
366 L0.012200.000000.9878
367 P0.012200.000000.9878
368 G0.012200.000000.9878
369 Y0.012200.000000.9878
370 E0.012200.000000.9878
371 V0.012200.000000.9878
372 R0.012200.000000.9878
373 I0.012200.000000.9878
374 D0.012200.000000.9878
375 A0.012200.000000.9878
376 A0.012200.000000.9878
377 P0.012200.000000.9878
378 G0.012200.000000.9878
379 A0.012200.000000.9878
380 R0.012200.000000.9878
381 A0.012200.000000.9878
382 G0.012200.000000.9878
383 T0.012200.000000.9878
384 I0.012200.000000.9878
385 K0.012200.000000.9878
386 L0.012200.000000.9878
387 R0.012200.000000.9878
388 G0.012200.000000.9878
389 D0.012200.000000.9878
390 S0.012200.000000.9878
391 V0.012200.000000.9878
392 A0.012200.000000.9878
393 A0.012200.000000.9878
394 K0.012200.000000.9878
395 A0.012200.000000.9878
396 Y0.012200.000000.9878
397 V0.012200.000000.9878
398 G0.012200.000000.9878
399 G0.012200.000000.9878
400 K0.012200.000000.9878
401 K0.012200.000000.9878
402 L0.012200.000000.9878
403 D0.012200.000000.9878
404 A0.012200.000000.9878
405 L0.012200.000000.9878
406 D0.012200.000000.9878
407 E0.012200.000000.9878
408 E0.012200.000000.9878
409 G0.012200.000000.9878
410 F0.012200.000000.9878
411 C0.012200.000000.9878
412 D0.012200.000000.9878
413 T0.012200.000000.9878
414 H0.012200.000000.9878
415 D0.012200.000000.9878
416 L0.012200.000000.9878
417 G0.012200.000000.9878
418 F0.012200.000000.9878
419 L0.012200.000000.9878
420 V0.012200.000000.9878
421 D0.012200.000000.9878
422 D0.012200.000000.9878
423 E0.012200.000000.9878
424 I0.012200.000000.9878
425 V0.012200.000000.9878
426 I0.012200.000000.9878
427 L0.012200.000000.9878
428 G0.012200.000000.9878
429 R0.012200.000000.9878
430 Q0.012200.000000.9878
431 D0.012200.000000.9878
432 E0.012200.000000.9878
433 V0.012200.000000.9878
434 F0.012200.000000.9878
435 I0.012200.000000.9878
436 V0.012200.000000.9878
437 H0.012200.000000.9878
438 G0.012200.000000.9878
439 E0.012200.000000.9878
440 N0.012200.000000.9878
441 R0.012200.000000.9878
442 F0.012200.000000.9878
443 P0.012200.000000.9878
444 Y0.012200.000000.9878
445 D0.012200.000000.9878
446 I0.012200.000000.9878
447 E0.012200.000000.9878
448 F0.012200.000000.9878
449 I0.012200.000000.9878
450 I0.012200.000000.9878
451 R0.012200.000000.9878
452 G0.012200.000000.9878
453 E0.012200.000000.9878
454 S0.012200.000000.9878
455 E0.012200.000000.9878
456 Q0.012200.000000.9878
457 H0.012200.000000.9878
458 R0.012200.000000.9878
459 T0.012200.000000.9878
460 K0.012200.000000.9878
461 V0.012200.000000.9878
462 A0.012200.000000.9878
463 C0.012200.000000.9878
464 F0.012200.000000.9878
465 G0.012200.000000.9878
466 V0.012200.000000.9878
467 N0.012200.000000.9878
468 E0.012200.000000.9878
469 R0.012200.000000.9878
470 V0.012200.000000.9878
471 V0.012200.000000.9878
472 V0.012200.000000.9878
473 V0.012200.000000.9878
474 L0.012200.000000.9878
475 E0.012200.000000.9878
476 S0.012200.000000.9878
477 P0.012200.000000.9878
478 L0.012200.000000.9878
479 D0.012200.000000.9878
480 S0.012200.000000.9878
481 I0.012200.000000.9878
482 I0.012200.000000.9878
483 D0.012200.000000.9878
484 K0.012200.000000.9878
485 A0.012200.000000.9878
486 E0.012200.000000.9878
487 A0.012200.000000.9878
488 D0.012200.000000.9878
489 R0.012200.000000.9878
490 L0.012200.000000.9878
491 R0.012200.000000.9878
492 C0.012200.000000.9878
493 Q0.012200.000000.9878
494 V0.012200.000000.9878
495 V0.012200.000000.9878
496 A0.012200.000000.9878
497 A0.012200.000000.9878
498 T0.012200.000000.9878
499 G0.012200.000000.9878
500 L0.012200.000000.9878
501 Q0.012200.000000.9878
502 L0.012200.000000.9878
503 D0.012200.000000.9878
504 E0.012200.000000.9878
505 L0.012200.000000.9878
506 I0.012200.000000.9878
507 T0.012200.000000.9878
508 V0.012200.000000.9878
509 R0.012200.000000.9878
510 R0.012200.000000.9878
511 G0.012200.000000.9878
512 A0.012200.000000.9878
513 I0.012200.000000.9878
514 P0.012200.000000.9878
515 T0.012200.000000.9878
516 T0.012200.000000.9878
517 T0.012200.000000.9878
518 S0.012200.000000.9878
519 G0.012200.000000.9878
520 K0.012200.000000.9878
521 L0.012200.000000.9878
522 K0.012200.000000.9878
523 R0.012200.000000.9878
524 R0.012200.000000.9878
525 A0.012200.000000.9878
526 V0.012200.000000.9878
527 A0.012200.000000.9878
528 Q0.012200.000000.9878
529 A0.012200.000000.9878
530 Y0.012200.000000.9878
531 R0.012200.000000.9878
532 D0.012200.000000.9878
533 G0.012200.000000.9878
534 T0.012200.000000.9878
535 L0.012200.000000.9878
536 P0.012200.000000.9878
537 R0.012200.000000.9878
538 L0.012200.000000.9878
539 A0.012200.000000.9878
540 T0.012200.000000.9878
541 H0.012200.000000.9878
542 A0.012200.000000.9878
543 W0.012200.000000.9878
544 T0.012200.000000.9878
545 A0.012200.000000.9878
546 D0.012200.000000.9878
547 P0.012200.000000.9878
548 D0.012200.000000.9878
549 S0.012200.000000.9878
550 A0.012200.000000.9878
551 P0.012200.000000.9878
552 K0.012200.000000.9878
553 T0.012200.000000.9878
554 T0.012200.000000.9878
555 R0.012200.000000.9878
556 S0.012200.000000.9878
557 S0.012200.000000.9878
558 L0.012200.000000.9878
559 E0.012200.000000.9878
560 G0.012200.000000.9878
561 A0.012200.000000.9878
562 H0.012200.000000.9878

General Statistics
Length: 562
Number of predicted TMHs: 0
Exp number of AAs in TMHs: 1.90675
Exp number, first 60 AAs: 0.004
Total prob of N-in: 0.02058
outside: from residue 1 to 562
TMHMM predicts transmembrane helices and the location of the intervening loop regions.
If the whole sequence is labeled as inside or outside, the prediction is that it contains no membrane helices. It is probably not wise to interpret it as a prediction of location. The prediction gives the most probable location and orientation of transmembrane helices in the sequence.
Plot of probabilities
The plot shows the probabilities of inside/outside/TM helix. Possible weak TM helices are sometimes not predicted, and one can get an idea of the certainty of each segment in the prediction.
At the top of the plot (between 1 and 1.2) the best prediction is shown.
The plot is obtained by calculating the total probability that a residue sits in helix, inside, or outside summed over all possible paths through the model. Sometimes it seems like the plot and the prediction are contradictory, but that is because the plot shows probabilities for each residue, whereas the prediction is the over-all most probable structure. Therefore the plot should be seen as a complementary source of information.
Remarks
  • Predicted TM segments in the n-terminal region sometimes turn out to be signal peptides.
  • One of the most common mistakes by the program is to reverse the direction of proteins with one TM segment.
  • The program does not predict whether a non-membrane protein is cytoplasmic or not.
  • This prediction has been generated using TMHMM Server v. 2.0