Table 5.
The numbering in MFS proteins.
| Protein | H1 | H2 | H3 | H4 | H5 | H6 | H7 | H8 | H9 | H10 | H11 | H12 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| XylE (4JA4) | 17–33 | 57–74 | 87–104 | 126–145 | 166–183 | 201–218 | 281–301 | 316–333 | 343–361 | 371–390 | 410–427 | 443–463 |
| G25 | G71 | A92 | G141 | G174 | A210 | S285 | T329 | G348 | G388 | Q415 | A456 | |
| G1.0 | G2.0 | A3.0 | G4.0 | G5.0 | A6.0 | S7.0 | T8.0 | G9.0 | G10.0 | G11.0 | G12.0 | |
| PepT (2XUT) | 18–39 | 53–75 | 86–105 | 110–129 | 153–172 | 178–195 | 304–324 | 335–352 | 376–393 | 404–424 | 444–464 | 483–500 |
| A22 | G66 | L93 | G124 | G160 | F189 | T309 | A342 | G379 | G418 | S449 | A489 | |
| A1.0 | G2.0 | L3.0 | G4.0 | G5.0 | F6.0 | T7.0 | A8.0 | G9.0 | G10.0 | S11.0 | A12.0 | |
| LacY (1PV6) | 10–35 | 41–64 | 75–96 | 103–128 | 143–163 | 167–187 | 222–248 | 257–278 | 289–309 | 312–332 | 352–373 | 380–399 |
| G13 | F55 | L84 | G111 | G147 | A177 | Q248 | T266 | G296 | G332 | S366 | L390 | |
| G1.0 | F2.0 | L3.0 | G4.0 | G5.0 | A6.0 | Q7.0 | T8.0 | G9.0 | G10.0 | S11.0 | L12.0 | |
| FucP (3O7Q) | 28–47 | 64–86 | 90–108 | 119–140 | 154–174 | 210–229 | 261–282 | 301–319 | 326–345 | 348–372 | 383–403 | 412–430 |
| N43 | G73 | L98 | G132 | G165 | V219 | Q267 | V306 | L328 | G372 | T390 | A419 | |
| N1.0 | G2.0 | L3.0 | G4.0 | G5.0 | V6.0 | Q7.0 | V8.0 | L9.0 | G10.0 | T11.0 | A12.0 | |
| GLUT1 (4PYP) | 14–36 | 64–91 | 94–112 | 119–140 | 157–176 | 187–206 | 275–295 | 306–326 | 335–354 | 366–387 | 402–426 | 431–449 |
| G27 | G79 | A103 | G134 | G167 | A197 | Q283 | I315 | G340 | G382 | N415 | L441 | |
| G1.0 | G2.0 | A3.0 | G4.0 | G5.0 | A6.0 | Q7.0 | I8.0 | G9.0 | G10.0 | S11.0 | L12.0 | |
| EmrD (2GFP) | 11–31 | 43–64 | 73–92 | 97–116 | 134–155 | 157–175 | 208–229 | 237–261 | 267–283 | 289–306 | 326–345 | 357–378 |
| Q21 | T55 | L77 | G109 | G140 | L169 | N210 | S246 | L279 | G295 | T334 | L374 | |
| Q1.0 | T2.0 | L3.0 | G4.0 | G5.0 | L6.0 | N7.0 | S8.0 | L9.0 | G10.0 | T11.0 | L12.0 | |
| GlcP (4LDS) | 7–31 | 41–64 | 74–92 | 95–115 | 134–154 | 159–178 | 244–266 | 275–295 | 305–325 | 335–355 | 376–395 | 400–418 |
| G20 | G54 | I83 | G106 | G143 | V168 | N256 | N287 | G310 | G349 | S388 | A408 | |
| G1.0 | G2.0 | I3.0 | G4.0 | G5.0 | V6.0 | N7.0 | N8.0 | G9.0 | G10.0 | S11.0 | A12.0 | |
| GlpT (1PW4) | 32–51 | 65–84 | 93–110 | 121–139 | 159–178 | 190–208 | 255–277 | 292–311 | 322–340 | 349–369 | 386–405 | 416–435 |
| N47 | G77 | L100 | G131 | G168 | A197 | N262 | T306 | G325 | G363 | T388 | L431 | |
| N1.0 | G2.0 | L3.0 | G4.0 | G5.0 | A6.0 | N7.0 | T8.0 | G9.0 | G10.0 | T11.0 | L12.0 | |
| MelB (4M64) | 11–29 | 46–63 | 79–98 | 107–129 | 147–169 | 178–196 | 233–252 | 272–291 | 295–312 | 332–347 | 368–385 | 415–432 |
| G23 | W54 | L91 | G117 | G156 | L186 | N244 | N279 | G301 | G337 | T373 | L420 | |
| G1.0 | W2.0 | L3.0 | G4.0 | G5.0 | L6.0 | N7.0 | N8.0 | G9.0 | G10.0 | T11.0 | L12.0 | |
| NarU (4IU8) | 37–56 | 73–91 | 101–119 | 130–147 | 167–187 | 211–229 | 254–277 | 290–307 | 316–334 | 347–367 | 405–423 | 431–454 |
| L44 | G83 | L110 | G139 | G172 | V218 | S258 | S304 | N322 | G362 | S408 | V447 | |
| L1.0 | G2.0 | L3.0 | G4.0 | G5.0 | V6.0 | S7.0 | S8.0 | N9.0 | G10.0 | S11.0 | V12.0 | |
| NRT1.1 (5A2N) | 38–57 | 70–91 | 100–119 | 147–166 | 193–213 | 218–237 | 342–364 | 381–399 | 421–439 | 462–481 | 500–520 | 542–561 |
| G50 | G88 | A110 | G161 | G200 | L232 | Q358 | S383 | G426 | G475 | S514 | L554 | |
| G1.0 | G2.0 | A3.0 | G4.0 | G5.0 | L6.0 | Q7.0 | S8.0 | G9.0 | G10.0 | S11.0 | L12.0 | |
| PiPT (4J05) | 39–56 | 74–92 | 106–123 | 133–151 | 173–195 | 209–227 | 313–333 | 358–377 | 385–404 | 415–436 | 452–469 | 481–499 |
| A46 | G84 | I113 | G143 | G180 | A222 | N333 | N361 | G392 | G429 | N470 | L482 | |
| A1.0 | G2.0 | I3.0 | G4.0 | G5.0 | A6.0 | N7.0 | N8.0 | G9.0 | G10.0 | N11.0 | L12.0 | |
| YajR (3WDO) | 14–33 | 51–69 | 79–98 | 102–119 | 136–155 | 165–183 | 215–234 | 250–268 | 279–298 | 303–325 | 340–361 | 368–386 |
| L26 | G58 | L85 | G112 | G141 | I179 | N218 | V264 | G286 | G308 | S346 | A378 | |
| L1.0 | G2.0 | L3.0 | G4.0 | G5.0 | I6.0 | N7.0 | V8.0 | G9.0 | G10.0 | S11.0 | A12.0 | |
| YgbH (4Q65) | 13–33 | 49–67 | 78–95 | 101–120 | 142–161 | 169–187 | 267–289 | 311–331 | 342–362 | 379–400 | 414–433 | 461–480 |
| G27 | G65 | A83 | G115 | G150 | L182 | Q285 | S315 | G351 | G388 | N427 | V470 | |
| G1.0 | G2.0 | A3.0 | G4.0 | G5.0 | L6.0 | Q7.0 | S8.0 | G9.0 | G10.0 | N11.0 | V12.0 |
TM helices were taken as those predicted by the OPM database (Lomize et al., 2006). The x.0 residue of each helix is summarized in Table 4. The helix is numbered x.0, where x is the helix number and it is prefixed by the conserved residue, for example in TM helix 5, the most conserved residue is a glycine, therefore it is G5.0. Residues from this residue toward the cytoplasm are labeled as negative numbers and residues toward the periplasm are given positive numbers (for example TM helix 5 in XylE is FNQFAIIFGQLLVYCVNY giving: …, I5.-2, F5.-1, G5.0, Q5.1, L5.2, …). The proposed numbering start points are indicated in bold for each helix from each protein.