TransMembrane prediction using Hidden Markov Models for Rv2914c




Residue number
and Amino Acid
Probabilities
InsideMembraneOutside
1 M0.283340.000000.71666
2 A0.275660.007690.71666
3 L0.274390.008960.71666
4 A0.274390.010040.71557
5 S0.262980.022470.71454
6 G0.262980.023800.71322
7 V0.149020.139430.71154
8 T0.149020.139440.71154
9 F0.143420.145160.71142
10 A0.143420.148870.70771
11 G0.143220.149130.70764
12 Y0.105550.187100.70735
13 T0.100610.192210.70717
14 V0.100610.192210.70717
15 V0.100610.192990.7064
16 R0.100600.193000.7064
17 M0.100400.193170.70642
18 L0.100390.193150.70646
19 G0.100420.192990.70659
20 C0.100470.190270.70927
21 S0.100580.189120.71029
22 A0.100740.188780.71048
23 M0.100990.188300.71071
24 G0.101190.187810.711
25 E0.101480.182700.71582
26 V0.101460.181720.71681
27 Y0.101710.178420.71987
28 L0.102220.166330.73145
29 V0.103830.160190.73599
30 Q0.109180.038850.85198
31 H0.109310.034810.85588
32 P0.109450.026580.86397
33 G0.109620.025640.86475
34 F0.109640.024910.86545
35 P0.109820.003130.88705
36 G0.109870.001640.88849
37 W0.109870.001610.88851
38 Q0.110450.000960.88859
39 A0.110460.000930.88861
40 L0.110460.000810.88873
41 K0.110470.000730.8888
42 V0.110470.000730.8888
43 L0.110470.000720.88881
44 S0.110470.000710.88881
45 P0.110490.000690.88881
46 A0.110510.000670.88881
47 M0.110550.000630.88882
48 A0.110570.000610.88883
49 A0.110680.000460.88886
50 D0.111090.000030.88888
51 D0.111110.000010.88888
52 E0.111110.000000.88888
53 F0.111110.000000.88888
54 R0.111120.000000.88888
55 R0.111120.000000.88888
56 R0.111120.000000.88888
57 F0.111120.000000.88888
58 Q0.111120.000000.88888
59 R0.111120.000000.88888
60 E0.111120.000000.88888
61 T0.111120.000000.88888
62 E0.111120.000000.88888
63 V0.111120.000000.88888
64 A0.111120.000000.88888
65 A0.111120.000000.88888
66 R0.111120.000000.88888
67 L0.111120.000000.88888
68 F0.111120.000000.88888
69 H0.111120.000000.88888
70 P0.111120.000000.88888
71 H0.111120.000000.88888
72 I0.111120.000000.88888
73 L0.111120.000000.88888
74 E0.111120.000000.88888
75 V0.111120.000000.88888
76 H0.111120.000000.88888
77 D0.111120.000000.88888
78 R0.111120.000000.88888
79 G0.111120.000000.88888
80 E0.111120.000000.88888
81 F0.111120.000000.88888
82 D0.111120.000000.88888
83 G0.111120.000000.88888
84 Q0.111120.000000.88888
85 L0.111120.000000.88888
86 W0.111120.000000.88888
87 I0.111120.000000.88888
88 A0.111120.000000.88888
89 M0.111120.000000.88888
90 D0.111120.000000.88888
91 Y0.111120.000000.88888
92 V0.111120.000000.88888
93 D0.111120.000000.88888
94 G0.111120.000000.88888
95 I0.111120.000000.88888
96 D0.111120.000000.88888
97 A0.111120.000010.88888
98 T0.111120.000010.88887
99 Q0.111120.000070.88881
100 H0.111110.000880.888
101 M0.111070.002630.8863
102 A0.110990.004950.88406
103 D0.110900.010330.87876
104 R0.109920.021100.86898
105 F0.091740.101490.80677
106 P0.086840.173230.73993
107 A0.078500.247630.67386
108 V0.074700.274450.65085
109 L0.074000.283600.6424
110 P0.073880.287010.63911
111 V0.073650.290830.63551
112 G0.073640.291220.63513
113 E0.073640.291300.63505
114 V0.073630.291550.63482
115 L0.073630.291610.63475
116 A0.073630.291620.63474
117 I0.073630.291630.63474
118 V0.073640.291620.63474
119 T0.073670.291600.63474
120 A0.073690.291570.63474
121 V0.073740.291520.63475
122 A0.074640.290580.63478
123 G0.078090.286600.63531
124 A0.083810.279990.63621
125 L0.101750.256380.64188
126 D0.174500.178280.64722
127 Y0.186930.163880.64919
128 A0.236670.102370.66096
129 H0.284990.049170.66584
130 Q0.325560.003630.67081
131 R0.326910.000920.67217
132 G0.327070.000730.6722
133 L0.327140.000660.67221
134 L0.327550.000230.67222
135 H0.327730.000050.67222
136 R0.327770.000000.67222
137 D0.327780.000000.67222
138 V0.327780.000000.67222
139 N0.327780.000000.67222
140 P0.327780.000000.67222
141 A0.327780.000000.67222
142 N0.327780.000000.67222
143 V0.327780.000000.67222
144 V0.327780.000000.67222
145 L0.327780.000000.67222
146 T0.327780.000000.67222
147 S0.327780.000000.67222
148 Q0.327780.000000.67222
149 S0.327780.000000.67222
150 A0.327780.000000.67222
151 G0.327780.000000.67222
152 D0.327780.000000.67222
153 Q0.327780.000000.67222
154 R0.327780.000000.67222
155 I0.327780.000010.67221
156 L0.327780.000010.67221
157 L0.327780.000010.67221
158 A0.327780.000010.67221
159 D0.327780.000010.67221
160 F0.327780.000010.67221
161 G0.327780.000010.67221
162 I0.327780.000010.67221
163 A0.327780.000010.67221
164 S0.327780.000010.67221
165 Q0.327780.000010.67221
166 P0.327780.000010.67221
167 S0.327780.000010.67221
168 Y0.327780.000010.67221
169 P0.327780.000010.67221
170 A0.327780.000010.67221
171 P0.327780.000010.67221
172 E0.327780.000010.67221
173 L0.327780.000010.67221
174 S0.327780.000010.67221
175 A0.327780.000010.67221
176 G0.327780.000010.67221
177 A0.327780.000010.67221
178 D0.327790.000000.67221
179 V0.327790.000010.67221
180 D0.327790.000010.6722
181 G0.327790.000070.67214
182 R0.327790.000110.67211
183 A0.327780.000300.67192
184 D0.327780.000330.67189
185 Q0.327760.000580.67166
186 Y0.327710.000710.67158
187 A0.327710.000730.67156
188 L0.327700.000740.67156
189 A0.327700.000740.67156
190 L0.327700.000740.67156
191 T0.327700.000740.67156
192 A0.327700.000740.67156
193 I0.327700.000740.67156
194 H0.327700.000740.67156
195 L0.327700.000740.67156
196 F0.327700.000740.67156
197 A0.327700.000740.67156
198 G0.327720.000720.67156
199 A0.327780.000660.67156
200 P0.327830.000610.67156
201 P0.327910.000530.67156
202 V0.327950.000490.67157
203 D0.328290.000110.6716
204 R0.328310.000070.67162
205 S0.328320.000050.67163
206 H0.328330.000040.67163
207 T0.328340.000030.67163
208 G0.328340.000020.67163
209 P0.328360.000000.67164
210 L0.328360.000000.67164
211 Q0.328360.000000.67164
212 P0.328360.000000.67164
213 P0.328360.000000.67164
214 K0.328360.000000.67164
215 L0.328360.000000.67164
216 S0.328360.000000.67164
217 A0.328360.000000.67164
218 F0.328360.000000.67164
219 R0.328360.000000.67164
220 P0.328360.000000.67164
221 D0.328360.000000.67164
222 L0.328360.000000.67164
223 A0.328360.000000.67164
224 R0.328360.000000.67164
225 L0.328360.000000.67164
226 D0.328360.000000.67164
227 G0.328360.000010.67163
228 V0.328360.000010.67163
229 L0.328360.000010.67163
230 S0.328360.000010.67163
231 R0.328360.000010.67163
232 A0.328360.000010.67163
233 L0.328360.000010.67163
234 A0.328360.000010.67163
235 T0.328360.000010.67163
236 A0.328360.000010.67163
237 P0.328360.000010.67163
238 A0.328360.000010.67163
239 D0.328360.000010.67163
240 R0.328360.000010.67163
241 F0.328360.000010.67163
242 G0.328360.000010.67163
243 S0.328360.000010.67163
244 C0.328360.000010.67163
245 R0.328370.000000.67163
246 E0.328370.000000.67163
247 F0.328370.000000.67163
248 A0.328370.000000.67163
249 D0.328370.000000.67163
250 A0.328370.000000.67163
251 M0.328370.000000.67163
252 N0.328370.000000.67163
253 E0.328370.000000.67163
254 Q0.328370.000000.67163
255 A0.328370.000000.67163
256 G0.328370.000000.67163
257 V0.328370.000000.67163
258 A0.328370.000000.67163
259 I0.328370.000000.67163
260 A0.328370.000000.67163
261 D0.328370.000000.67163
262 Q0.328370.000000.67163
263 S0.328370.000000.67163
264 S0.328370.000000.67163
265 G0.328370.000000.67163
266 G0.328370.000000.67163
267 V0.328370.000000.67163
268 D0.328370.000000.67163
269 A0.328370.000000.67163
270 S0.328370.000000.67163
271 E0.328370.000000.67163
272 V0.328370.000000.67163
273 T0.328370.000000.67163
274 A0.328370.000000.67163
275 A0.328370.000000.67163
276 A0.328370.000000.67163
277 G0.328370.000000.67163
278 E0.328370.000000.67163
279 E0.328370.000000.67163
280 A0.328370.000000.67163
281 Y0.328370.000000.67163
282 V0.328370.000000.67163
283 V0.328370.000000.67163
284 D0.328370.000000.67163
285 Y0.328370.000000.67163
286 P0.328370.000000.67163
287 A0.328370.000000.67163
288 Y0.328370.000000.67163
289 G0.328370.000000.67163
290 W0.328370.000000.67163
291 P0.328370.000000.67163
292 E0.328370.000000.67163
293 A0.328370.000000.67163
294 V0.328370.000000.67163
295 D0.328370.000000.67163
296 C0.328370.000000.67163
297 K0.328370.000000.67163
298 E0.328370.000000.67163
299 P0.328370.000000.67163
300 S0.328370.000000.67163
301 A0.328370.000000.67163
302 R0.328370.000000.67163
303 A0.328370.000000.67163
304 P0.328370.000000.67163
305 A0.328370.000000.67163
306 P0.328370.000000.67163
307 A0.328370.000000.67163
308 A0.328370.000000.67163
309 P0.328370.000000.67163
310 T0.328370.000010.67163
311 P0.328370.000010.67163
312 Q0.328370.000010.67162
313 R0.328370.000010.67162
314 R0.328370.000010.67162
315 G0.328370.000050.67158
316 S0.328370.000050.67158
317 M0.328370.000050.67158
318 L0.328370.000050.67158
319 Q0.328370.000050.67158
320 S0.328370.000050.67158
321 A0.328370.000050.67158
322 A0.328370.000050.67158
323 G0.328370.000050.67158
324 V0.328370.000050.67158
325 L0.328370.000050.67158
326 A0.328370.000050.67158
327 R0.328370.000050.67158
328 R0.328370.000050.67158
329 L0.328370.000050.67158
330 D0.328410.000010.67158
331 N0.328420.000010.67158
332 F0.328420.000000.67158
333 S0.328420.000000.67158
334 T0.328420.000000.67158
335 A0.328420.000000.67158
336 T0.328420.000000.67158
337 K0.328420.000000.67158
338 A0.328420.000000.67158
339 P0.328420.000000.67158
340 A0.328420.000000.67158
341 S0.328420.000000.67158
342 P0.328420.000000.67158
343 T0.328420.000000.67158
344 R0.328420.000000.67158
345 R0.328410.000020.67156
346 R0.328250.000430.67132
347 P0.325680.008310.66601
348 R0.319650.030720.64963
349 R0.269730.217920.51235
350 I0.075820.746840.17735
351 L0.021540.892460.08601
352 V0.006590.969820.02358
353 G0.002070.986790.01114
354 A0.000150.996480.00338
355 V0.000010.997190.0028
356 A0.000000.997240.00275
357 V0.000000.997250.00275
358 L0.000000.997250.00275
359 L0.000000.997250.00275
360 L0.000000.997250.00275
361 A0.000000.997250.00275
362 G0.000000.997250.00275
363 L0.000000.997250.00275
364 F0.000000.997250.00275
365 A0.000020.997210.00278
366 V0.000050.997080.00287
367 G0.000550.995970.00348
368 I0.005030.987760.0072
369 V0.018970.961100.01993
370 I0.117900.802660.07943
371 G0.263410.582740.15386
372 R0.521640.223300.25506
373 K0.659440.011520.32904
374 T0.667200.002300.3305
375 N0.668570.000410.33102
376 T0.668740.000150.33111
377 T0.668830.000010.33116
378 A0.668830.000000.33116
379 T0.668820.000010.33117
380 E0.668820.000020.33117
381 V0.668700.000170.33113
382 A0.668680.000210.33112
383 R0.668590.000300.33111
384 P0.668000.000910.33109
385 P0.666850.002810.33035
386 T0.666770.003200.33003
387 S0.666570.003910.32952
388 G0.666180.004430.32939
389 S0.665900.005010.3291
390 A0.665500.006060.32845
391 V0.665290.007010.3277
392 P0.665260.007260.32748
393 S0.665250.007500.32726
394 A0.665250.007740.32702
395 P0.665250.007780.32698
396 T0.665250.007920.32683
397 T0.665250.007960.32679
398 T0.665250.008010.32675
399 V0.665250.008010.32674
400 A0.665250.008010.32674
401 V0.665250.008010.32674
402 T0.665250.007970.32678
403 A0.665260.007900.32684
404 P0.665330.007550.32712
405 V0.665350.007430.32722
406 P0.665440.007030.32753
407 L0.665500.006450.32804
408 D0.666970.003460.32957
409 G0.667090.003250.32966
410 T0.667590.002610.3298
411 Y0.667720.002310.32998
412 R0.668260.001570.33018
413 I0.668430.001330.33025
414 E0.669170.000520.33032
415 I0.669250.000440.33032
416 Q0.669660.000020.33032
417 R0.669680.000000.33032
418 S0.669680.000000.33032
419 K0.669680.000000.33032
420 Q0.669680.000000.33032
421 T0.669680.000000.33032
422 Y0.669680.000000.33032
423 D0.669680.000000.33032
424 Y0.669680.000000.33032
425 T0.669680.000000.33032
426 P0.669680.000000.33032
427 T0.669680.000000.33032
428 P0.669680.000000.33032
429 Q0.669680.000000.33032
430 P0.669680.000000.33032
431 P0.669680.000000.33032
432 D0.669680.000000.33032
433 V0.669670.000050.33028
434 N0.669670.000050.33028
435 T0.669670.000060.33027
436 W0.669640.000150.3302
437 W0.669640.000170.33019
438 A0.669640.000170.33019
439 F0.669640.000170.33019
440 R0.669640.000170.33019
441 T0.669640.000170.33019
442 S0.669640.000170.33019
443 C0.669640.000170.33019
444 T0.669640.000170.33019
445 P0.669640.000170.33019
446 T0.669640.000170.33019
447 E0.669640.000170.33019
448 C0.669640.000170.33019
449 L0.669640.000170.33019
450 A0.669640.000170.33019
451 A0.669640.000170.33019
452 A0.669640.000170.33019
453 T0.669650.000170.33019
454 M0.669650.000160.3302
455 L0.669660.000140.3302
456 D0.669770.000000.33022
457 D0.669770.000000.33022
458 N0.669770.000000.33022
459 D0.669770.000000.33022
460 H0.669770.000000.33022
461 T0.669770.000000.33022
462 Q0.669770.000000.33022
463 A0.669770.000000.33022
464 K0.669770.000000.33022
465 T0.669770.000000.33022
466 P0.669770.000000.33022
467 P0.669770.000000.33022
468 V0.669770.000000.33022
469 R0.669770.000000.33022
470 P0.669770.000000.33022
471 F0.669770.000000.33022
472 L0.669770.000000.33022
473 M0.669770.000000.33022
474 Q0.669770.000000.33022
475 F0.669770.000000.33022
476 G0.669770.000000.33022
477 E0.669770.000000.33022
478 G0.669770.000000.33022
479 Q0.669770.000000.33022
480 W0.669770.000000.33022
481 K0.669770.000000.33022
482 S0.669770.000000.33022
483 R0.669770.000000.33022
484 P0.669770.000000.33022
485 E0.669770.000000.33022
486 T0.669770.000000.33022
487 V0.669770.000000.33022
488 Q0.669770.000000.33022
489 F0.669770.000000.33022
490 P0.669770.000000.33022
491 C0.669770.000000.33022
492 V0.669770.000000.33022
493 G0.669770.000000.33022
494 P0.669770.000000.33022
495 N0.669770.000000.33022
496 G0.669770.000000.33022
497 S0.669770.000000.33022
498 P0.669770.000000.33022
499 S0.669770.000000.33022
500 T0.669770.000000.33022
501 Q0.669770.000000.33022
502 A0.669770.000000.33022
503 T0.669770.000000.33022
504 T0.669770.000000.33022
505 Q0.669770.000000.33022
506 L0.669770.000000.33022
507 L0.669770.000000.33022
508 A0.669770.000000.33022
509 L0.669770.000000.33022
510 R0.669770.000000.33022
511 P0.669770.000000.33022
512 Q0.669770.000000.33023
513 P0.669770.000000.33023
514 Q0.669770.000000.33023
515 G0.669770.000000.33023
516 D0.669770.000000.33023
517 L0.669770.000000.33023
518 V0.669770.000000.33023
519 G0.669770.000000.33023
520 E0.669770.000000.33023
521 M0.669770.000000.33023
522 V0.669770.000000.33023
523 V0.669770.000000.33023
524 T0.669770.000000.33023
525 V0.669770.000000.33023
526 H0.669770.000000.33023
527 S0.669770.000000.33023
528 N0.669770.000000.33023
529 E0.669770.000000.33023
530 C0.669770.000000.33023
531 G0.669770.000000.33023
532 Q0.669770.000000.33023
533 Q0.669770.000000.33023
534 G0.669770.000000.33023
535 A0.669770.000000.33023
536 V0.669770.000000.33023
537 I0.669770.000000.33023
538 R0.669770.000000.33023
539 I0.669770.000000.33023
540 P0.669770.000000.33023
541 A0.669770.000000.33023
542 V0.669770.000000.33023
543 A0.669770.000000.33023
544 S0.669770.000000.33023
545 R0.669770.000000.33023
546 S0.669770.000000.33023
547 G0.669770.000000.33023
548 D0.669770.000000.33023
549 L0.669770.000000.33023
550 P0.669770.000000.33023
551 P0.669770.000000.33023
552 A0.669770.000000.33023
553 V0.669770.000000.33023
554 T0.669770.000000.33023
555 V0.669770.000000.33023
556 P0.669770.000000.33023
557 D0.669770.000000.33023
558 P0.669770.000000.33023
559 A0.669770.000000.33023
560 T0.669770.000000.33023
561 I0.669770.000000.33023
562 P0.669770.000000.33023
563 D0.669770.000000.33023
564 T0.669770.000000.33023
565 P0.669770.000000.33023
566 D0.669770.000000.33023
567 T0.669770.000000.33023
568 T0.669770.000000.33023
569 S0.669770.000000.33023
570 T0.669770.000000.33023
571 A0.669770.000000.33023
572 T0.669770.000000.33023
573 L0.669770.000000.33023
574 T0.669770.000000.33023
575 P0.669770.000000.33023
576 P0.669770.000000.33023
577 T0.669770.000000.33023
578 T0.669770.000000.33023
579 T0.669770.000000.33023
580 A0.669770.000000.33023
581 P0.669770.000000.33023
582 G0.669770.000000.33023
583 P0.669770.000000.33023
584 G0.669770.000000.33023
585 R0.669770.000000.33023

General Statistics
Length: 585
Number of predicted TMHs: 1
Exp number of AAs in TMHs: 32.1130699999999
Exp number, first 60 AAs: 4.31131
Total prob of N-in: 0.28334
outside: from residue 1 to 349
TMhelix: from residue 350 to 372
inside: from residue 373 to 585
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