TransMembrane prediction using Hidden Markov Models for Rv1032c




Residue number
and Amino Acid
Probabilities
InsideMembraneOutside
1 M0.504640.000000.49536
2 I0.504640.000000.49536
3 P0.504640.000000.49536
4 D0.504640.000000.49536
5 R0.504640.000000.49536
6 N0.504640.000000.49536
7 T0.504640.000000.49536
8 R0.504640.000000.49536
9 S0.504640.000000.49536
10 R0.504640.000000.49536
11 K0.504640.000000.49536
12 A0.504640.000000.49536
13 P0.504640.000000.49536
14 C0.504640.000000.49536
15 W0.504640.000000.49536
16 R0.504640.000000.49536
17 P0.504640.000000.49536
18 R0.504630.000010.49536
19 S0.504450.000240.4953
20 L0.501300.007630.49106
21 R0.500330.008610.49105
22 Q0.499290.015580.48513
23 Q0.479230.100080.4207
24 L0.211970.458660.32937
25 L0.036880.831060.13205
26 L0.013100.911280.07561
27 G0.009860.937200.05294
28 V0.002310.975450.02224
29 L0.001450.992990.00555
30 A0.001130.997010.00186
31 V0.000530.998910.00056
32 V0.000400.999440.00017
41 V0.000450.999310.00023
42 V0.000680.997130.00218
43 S0.004160.985720.01012
44 V0.005200.978520.01628
45 L0.016480.948720.03481
46 S0.101650.814260.08409
47 L0.183940.515130.30093
48 S0.387420.151270.46132
49 G0.430620.091820.47755
50 Y0.450070.067720.48222
51 V0.473800.036950.48925
52 T0.491180.017210.49161
53 A0.493950.012860.49319
54 M0.495240.006990.49777
55 N0.495670.002250.50209
56 D0.495730.001490.50278
57 A0.495730.001490.50278
58 E0.495730.001410.50286
59 L0.495730.001410.50286
60 V0.495730.001400.50287
61 E0.495730.001400.50287
62 S0.495730.001400.50287
63 L0.495730.001400.50287
64 H0.495740.001390.50287
65 A0.495770.001360.50287
66 L0.495820.001310.50287
67 N0.496070.001060.50287
68 H0.496310.000820.50287
69 S0.496510.000620.50287
70 Y0.496640.000490.50287
71 T0.496890.000240.50287
72 R0.497090.000040.50287
73 Y0.497110.000030.50287
74 R0.497130.000010.50286
75 D0.497130.000010.50286
76 S0.497130.000070.5028
77 A0.497130.000100.50277
78 Q0.497130.000130.50274
79 T0.497130.000150.50272
80 S0.497130.000160.50271
81 T0.497130.000170.5027
82 P0.497130.000180.50268
83 T0.497130.000250.50262
84 G0.497130.000430.50244
85 N0.497130.000690.50218
86 L0.497130.002370.50049
87 P0.497130.002750.50011
88 M0.497130.003580.49929
89 S0.497130.004080.49878
90 Q0.497130.005550.49732
91 A0.497120.008600.49427
92 V0.497120.013920.48896
93 L0.497120.015050.48782
94 E0.497160.017330.48551
95 F0.497160.048080.45476
96 T0.497200.086430.41638
97 G0.497230.110770.39201
98 Q0.497260.118680.38406
99 T0.497260.129180.37356
100 P0.497230.137120.36564
101 G0.497200.150630.35216
102 N0.497190.156540.34627
103 L0.497190.161030.34178
104 I0.497200.163670.33913
105 A0.497270.164390.33834
106 V0.497540.164230.33824
107 L0.498380.163390.33823
108 H0.500190.161580.33823
109 D0.502400.159370.33823
110 G0.502480.159300.33822
111 V0.502600.159190.33822
112 V0.502850.158940.33822
113 I0.503990.157790.33822
114 G0.506610.155170.33822
115 S0.517410.144370.33823
116 A0.520710.141070.33823
117 V0.525920.135860.33823
118 F0.555550.106220.33824
119 S0.614220.047510.33828
120 E0.652420.009270.33832
121 D0.657460.004220.33832
122 G0.657780.003890.33833
123 A0.659140.002540.33833
124 R0.661150.000520.33833
125 P0.661350.000320.33833
126 A0.661430.000240.33833
127 P0.661590.000080.33833
128 P0.661660.000010.33833
129 D0.661670.000000.33833
130 V0.661670.000000.33833
131 I0.661670.000000.33833
132 R0.661670.000000.33833
133 A0.661670.000000.33833
134 I0.661670.000000.33833
135 E0.661670.000000.33833
136 A0.661670.000000.33833
137 Q0.661670.000000.33833
138 V0.661670.000000.33833
139 W0.661670.000000.33833
140 D0.661670.000000.33833
141 G0.661670.000000.33833
142 G0.661670.000000.33833
143 P0.661670.000000.33833
144 P0.661670.000000.33833
145 R0.661670.000010.33832
146 V0.661670.000020.33831
147 E0.661670.000030.3383
148 S0.661670.000080.33825
149 L0.661670.000140.33819
150 G0.661670.000190.33813
151 S0.661670.000410.33792
152 L0.661670.001630.3367
153 G0.661670.005150.33318
154 A0.661670.011900.32643
155 Y0.661670.012760.32558
156 Q0.661670.013360.32497
157 V0.661670.015050.32328
158 D0.661670.016030.32229
159 S0.661660.037110.30123
160 S0.661660.041140.2972
161 A0.661660.054250.28409
162 A0.661630.155060.18331
163 G0.661610.171310.16708
164 A0.661600.189350.14906
165 D0.661600.189960.14844
166 R0.661590.192290.14611
167 L0.661560.198680.13976
168 F0.661570.198710.13972
169 V0.661600.198680.13972
170 G0.661650.198630.13972
171 V0.661730.198550.13972
172 S0.661800.198480.13972
173 L0.661890.198390.13972
174 S0.662380.197900.13972
175 L0.663420.196860.13972
176 A0.669340.190940.13972
177 N0.681930.178350.13972
178 Q0.683460.176820.13972
179 I0.684060.176230.13971
180 I0.689120.171160.13971
181 A0.707140.153140.13973
182 R0.858700.001480.13982
183 K0.859810.000380.13982
184 K0.854670.006180.13915
185 V0.757140.145800.09706
186 T0.659740.265900.07435
187 T0.525410.415320.05928
188 V0.051220.934680.01409
189 A0.017340.974500.00816
190 L0.004690.989600.00571
191 V0.000840.995430.00373
192 G0.000300.996250.00345
193 A0.000030.996720.00325
194 A0.000010.996780.00322
195 L0.000000.996790.00321
196 V0.000000.996790.00321
197 V0.000000.996790.00321
198 T0.000000.996790.00321
199 A0.000000.996790.00321
200 A0.000000.996790.00321
201 L0.000000.996790.00321
202 T0.000010.996780.00322
203 V0.000010.996720.00327
204 W0.000020.996480.0035
205 V0.000190.993010.00679
206 V0.001250.977230.02152
207 G0.004600.927310.06809
208 Y0.045880.756630.19748
209 A0.072340.584800.34287
210 L0.086480.457020.45651
211 R0.133170.017570.84926
212 P0.135730.004070.8602
213 L0.136220.001110.86267
214 R0.136610.000070.86333
215 R0.136630.000020.86336
216 V0.136630.000020.86336
217 A0.136630.000010.86336
218 A0.136630.000010.86336
219 T0.136630.000010.86336
220 A0.136630.000010.86336
221 A0.136630.000010.86336
222 E0.136630.000010.86336
223 V0.136630.000010.86336
224 A0.136630.000010.86336
225 T0.136630.000010.86336
226 M0.136630.000010.86336
227 P0.136630.000010.86336
228 L0.136630.000010.86336
229 T0.136630.000010.86336
230 D0.136630.000000.86337
231 D0.136630.000000.86337
232 D0.136630.000000.86337
233 H0.136630.000000.86337
234 Q0.136630.000000.86337
235 I0.136630.000000.86337
236 S0.136630.000000.86337
237 V0.136630.000000.86337
238 R0.136630.000000.86337
239 V0.136630.000000.86337
240 R0.136630.000000.86337
241 P0.136630.000000.86337
242 G0.136630.000000.86337
243 D0.136630.000000.86337
244 T0.136630.000000.86337
245 D0.136630.000000.86337
246 P0.136630.000000.86337
247 D0.136630.000000.86337
248 N0.136630.000000.86337
249 E0.136630.000000.86337
250 V0.136630.000000.86337
251 G0.136630.000000.86336
252 I0.136630.000000.86336
253 V0.136630.000000.86336
254 G0.136630.000000.86336
255 H0.136630.000000.86336
256 T0.136630.000000.86336
257 L0.136630.000000.86336
258 N0.136630.000000.86336
259 R0.136630.000000.86336
260 L0.136630.000000.86336
261 L0.136630.000000.86336
262 D0.136630.000000.86336
263 N0.136630.000000.86336
264 V0.136630.000000.86336
265 D0.136630.000000.86336
266 G0.136630.000000.86336
267 A0.136630.000000.86336
268 L0.136630.000000.86336
269 A0.136630.000000.86336
270 H0.136630.000000.86336
271 R0.136630.000000.86336
272 V0.136630.000000.86336
273 D0.136630.000000.86336
274 S0.136630.000000.86336
275 D0.136630.000000.86336
276 L0.136630.000000.86336
277 R0.136630.000000.86336
278 M0.136630.000000.86336
279 R0.136630.000000.86336
280 Q0.136630.000000.86336
281 F0.136630.000000.86336
282 I0.136630.000000.86336
283 T0.136630.000000.86336
284 D0.136630.000000.86336
285 A0.136630.000000.86336
286 S0.136630.000000.86336
287 H0.136630.000000.86336
288 E0.136630.000000.86336
289 L0.136630.000000.86336
290 R0.136630.000000.86336
291 T0.136630.000000.86336
292 P0.136630.000000.86336
293 L0.136630.000000.86336
294 A0.136630.000000.86336
295 A0.136630.000000.86336
296 I0.136630.000000.86336
297 Q0.136630.000000.86336
298 G0.136630.000000.86336
299 Y0.136630.000000.86336
300 A0.136630.000000.86336
301 E0.136630.000000.86336
302 L0.136630.000000.86336
303 T0.136630.000000.86336
304 R0.136630.000000.86337
305 Q0.136630.000000.86337
306 D0.136630.000000.86337
307 S0.136630.000000.86337
308 S0.136630.000000.86337
309 D0.136630.000000.86337
310 L0.136630.000000.86337
311 P0.136630.000000.86337
312 P0.136630.000000.86337
313 T0.136630.000000.86337
314 T0.136630.000000.86337
315 E0.136630.000000.86337
316 Y0.136630.000000.86337
317 A0.136630.000000.86337
318 L0.136630.000000.86337
319 A0.136630.000000.86337
320 R0.136630.000000.86337
321 I0.136630.000000.86337
322 E0.136630.000000.86337
323 S0.136630.000000.86337
324 E0.136630.000000.86337
325 A0.136630.000000.86337
326 R0.136630.000000.86337
327 R0.136630.000000.86337
328 M0.136630.000000.86337
329 T0.136630.000000.86337
330 L0.136630.000000.86337
331 L0.136630.000000.86337
332 V0.136630.000000.86337
333 D0.136630.000000.86337
334 E0.136630.000000.86337
335 L0.136630.000000.86337
336 L0.136630.000000.86337
337 L0.136630.000000.86337
338 L0.136630.000000.86337
339 S0.136630.000000.86337
340 R0.136630.000000.86337
341 L0.136630.000000.86337
342 S0.136630.000000.86337
343 E0.136630.000000.86337
344 G0.136630.000000.86337
345 E0.136630.000000.86337
346 D0.136630.000000.86337
347 L0.136630.000000.86337
348 E0.136630.000000.86337
349 T0.136630.000000.86337
350 E0.136630.000000.86337
351 D0.136630.000000.86337
352 L0.136630.000000.86337
353 D0.136630.000000.86337
354 L0.136630.000000.86337
355 T0.136630.000000.86337
356 D0.136630.000000.86337
357 L0.136630.000000.86337
358 V0.136630.000000.86337
359 I0.136630.000000.86337
360 N0.136630.000000.86337
361 A0.136630.000000.86337
362 V0.136630.000000.86337
363 N0.136630.000000.86337
364 D0.136630.000000.86337
365 A0.136630.000000.86337
366 A0.136630.000000.86337
367 V0.136630.000000.86337
368 A0.136630.000000.86337
369 A0.136630.000000.86337
370 P0.136630.000000.86337
371 T0.136630.000000.86337
372 H0.136630.000000.86337
373 R0.136630.000000.86337
374 W0.136630.000000.86337
375 V0.136630.000000.86337
376 K0.136630.000000.86337
377 N0.136630.000000.86337
378 L0.136630.000000.86337
379 P0.136630.000000.86337
380 D0.136630.000000.86337
381 E0.136630.000000.86337
382 P0.136630.000000.86337
383 V0.136630.000000.86337
384 W0.136630.000000.86337
385 V0.136630.000000.86337
386 N0.136630.000000.86337
387 G0.136630.000000.86337
388 D0.136630.000000.86337
389 H0.136630.000000.86337
390 A0.136630.000000.86337
391 R0.136630.000000.86337
392 L0.136630.000000.86337
393 H0.136630.000000.86337
394 Q0.136620.000010.86337
395 L0.136500.000130.86336
396 V0.136460.000170.86336
397 S0.136460.000180.86336
398 N0.136440.000190.86336
399 L0.136420.000210.86336
400 L0.136410.000230.86335
401 T0.136410.000230.86335
402 N0.136410.000240.86335
403 A0.136410.000240.86335
404 W0.136410.000240.86335
405 V0.136410.000240.86335
406 H0.136410.000240.86335
407 T0.136410.000240.86335
408 Q0.136410.000240.86335
409 P0.136410.000240.86335
410 G0.136410.000240.86335
411 V0.136410.000240.86335
412 T0.136410.000240.86335
413 V0.136410.000240.86335
414 T0.136410.000230.86335
415 I0.136410.000230.86336
416 G0.136410.000230.86336
417 I0.136410.000220.86338
418 T0.136410.000080.86351
419 C0.136420.000030.86356
420 H0.136420.000020.86356
421 R0.136420.000010.86357
422 T0.136420.000010.86357
423 G0.136420.000000.86357
424 P0.136430.000000.86357
425 N0.136430.000000.86357
426 A0.136430.000000.86357
427 P0.136430.000000.86357
428 C0.136430.000000.86357
429 V0.136430.000000.86357
430 E0.136430.000000.86357
431 L0.136430.000000.86357
432 S0.136430.000000.86357
433 V0.136430.000000.86357
434 T0.136430.000000.86357
435 D0.136430.000000.86357
436 D0.136430.000000.86357
437 G0.136430.000000.86357
438 P0.136430.000000.86357
439 D0.136430.000000.86357
440 I0.136430.000000.86357
441 D0.136430.000000.86357
442 P0.136430.000000.86357
443 E0.136430.000000.86357
444 I0.136430.000000.86357
445 L0.136430.000000.86357
446 P0.136430.000000.86357
447 H0.136430.000000.86357
448 L0.136430.000000.86357
449 F0.136430.000000.86357
450 D0.136430.000000.86357
451 R0.136430.000000.86357
452 F0.136430.000000.86357
453 V0.136430.000000.86357
454 R0.136430.000000.86357
455 A0.136430.000000.86357
456 S0.136420.000000.86357
457 K0.136420.000010.86357
458 S0.136400.000040.86356
459 R0.136350.000100.86355
460 S0.136270.000180.86355
461 N0.135960.000530.86352
462 G0.135820.000690.86349
463 S0.135780.000740.86348
464 G0.135730.000790.86348
465 H0.135720.000800.86347
466 G0.135710.000820.86347
467 L0.135700.000830.86347
468 G0.135700.000830.86347
469 L0.135700.000830.86347
470 A0.135700.000830.86347
471 I0.135700.000830.86347
472 V0.135700.000830.86347
473 S0.135700.000830.86347
474 S0.135700.000830.86347
475 I0.135700.000820.86347
476 V0.135710.000800.8635
477 K0.135740.000670.86358
478 A0.135750.000650.8636
479 H0.135760.000540.8637
480 R0.135770.000450.86378
481 G0.135770.000410.86381
482 S0.135780.000370.86385
483 V0.135780.000330.86389
484 T0.135800.000110.86409
485 A0.135810.000020.86417
486 E0.135810.000010.86418
487 S0.135810.000000.86419
488 G0.135810.000000.86419
489 N0.135810.000000.86419
490 G0.135810.000000.86419
491 Q0.135810.000000.86419
492 T0.135810.000000.86419
493 V0.135810.000000.86419
494 F0.135810.000000.86419
495 R0.135810.000000.86419
496 V0.135810.000000.86419
497 R0.135810.000000.86419
498 L0.135810.000000.86419
499 P0.135810.000000.86419
500 M0.135810.000000.86419
501 I0.135810.000000.86419
502 E0.135810.000000.86419
503 Q0.135810.000000.86419
504 Q0.135810.000000.86419
505 I0.135810.000000.86419
506 A0.135810.000000.86419
507 T0.135810.000000.86419
508 T0.135810.000000.86419
509 A0.135810.000000.86419

General Statistics
Length: 509
Number of predicted TMHs: 2
Exp number of AAs in TMHs: 52.77873
Exp number, first 60 AAs: 22.86391
Total prob of N-in: 0.50464
POSSIBLE N-term signal sequence
outside: from residue 1 to 24
TMhelix: from residue 25 to 47
inside: from residue 48 to 187
TMhelix: from residue 188 to 210
outside: from residue 211 to 509
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