TABLE 1.
Top208-Tm1 proteinsa
| Gene name | Set | SPScan score | SignalP score | SPScan-predicted signal peptide sequence | Relevant notes regarding function or identity |
|---|---|---|---|---|---|
| rv0315* | A | 14.8 | 0.667 | MLMPEMDRRRMMMMAGFGALAAALPAPTAWA ^DP | Glucanase (SCDB) |
| rv3668c* | A | 13.8 | 0.787 | LQTAHRRFAAAFAAVLLAVVCLPANTAAA ^DD | Possible protease (SCDB) |
| rv0477 | B | 13.7 | 0.888 | MKALVAVSAVAVVALLGVSSAQA ^DP | |
| rv0398c | A | 12.6 | 0.71 | MGVIARVVGVAACGLSLAVLAAAPTAGA ^EP | |
| rv3096 | A | 12.4 | 0.621 | VHRRTALKLPLLLAAGTVLGQAPRAAA ^EE | Glycosylhydrolase family 5 signature (PS00659) |
| rv3354* | A | 12.4 | 0.672 | MNLRRHQTLTLRLLAASAGILSAAAFAAPAQA ^NP | |
| rv1291c | B | 12 | 0.663 | MFTRRFAASMVGTTLTAATLGLAALGFAGTASA ^SS | |
| rv0559c | B | 11.9 | 0.873 | MKGTKLAVVVGMTVAAVSLAAPAQA ^DD | |
| rv1891 | A | 11.7 | 0.53 | MIRELVTTAAITGAAIGGAPVAGA ^DP | |
| rv3333c | A | 11.5 | 0.538 | MFTGIASHAGALGAALVVLIGAAILHDGPAAA ^DP | |
| rv0040c | C | 11.4 | 0.7 | MIQIARTWRVFAGGMATGFIGVVLVTAGKASA ^DP | MTC28 (19) |
| rv1269c* | A | 11.4 | 0.73 | MTTMITLRRRFAVAVAGVATAAATTVTLAPAPANA ^AD | |
| rv2253 | B | 11.3 | 0.824 | MSGHRKKAMLALAAASLAATLAPNAVAA ^AE | |
| rv1860 | C | 11.2 | 0.627 | MHQVDPNLTRRKGRLAALAIAAMASASLVTVAVPATANA ^DP | MPT32 (17) |
| rv0455c | B | 11 | 0.661 | MSRLSSILRAGAAFLVLGIAAATFPQSAAA ^DS | |
| rv1268c* | A | 10.9 | 0.779 | MTTSKIATAFKTATFALAAGAVALGLASPADA ^AA | Cys proteases histidine active site (PS00639) |
| rv1174c | C | 10.6 | 0.579 | MRLSLTALSAGVGAVAMSLTVGAGVASA ^DP | Mtb8.4SA-5K (9, 12) |
| rv2376c | C | 10.5 | 0.438 | MAGGPVVYQMQPVVFGAPLPLDPASA ^PD | MTB12 (32) |
| rv2450c* | B | 10.5 | 0.697 | LKNARTTLIAAAIAGTLVTTSPAGIANA ^DD | Putative pheromone (23) |
| rv1271c | A | 10.2 | 0.592 | MLSPLSPRIIAAFTTAVGAAAIGLAVATAGTAGA ^NT | |
| rv1980c | C | 10.2 | 0.83 | VRIKIFMLVTAVVLLCCSGVATA ^AP | MPT64 (36) |
| rv0617 | A | 10 | 0.458 | VTVLLDANVLIALVVAEHVHH ^DA | |
| rv0674 | A | 10 | 0.635 | MPAMTARSVVLSVLLGAHPAWA ^TA | |
| rv1906c* | A | 10 | 0.753 | MRLKPAPSPAAAFAVAGLILAGWAGSVGLAGA ^DP | |
| rv1006 | A | 9.9 | 0.432 | MVLRSRKSTLGVVVCLALVLGGPLNGCSSSA ^SH | |
| rv2389c | A | 9.5 | 0.842 | MFVALLGLSTISSKA ^DD | Putative pheromone (23) |
| rv2878c | C | 9.4 | 0.581 | MSLRLVSPIKAFADGIVAVAIAVVLMFGLANTPRAVA ^AD | MPT53, DsbE (34) |
| rv3036c | B | 9.4 | 0.598 | MRYLIATAVLVAVVLVGWPAAGA ^PP | Similar to MPT64 (SCDB) |
| rv1566c* | B | 9.2 | 0.55 | MKRSMKSGSFAIGLAMMLAPMVAAPGLAAA ^DP | Similar to Listeria invasion-associated p60 (SCDB) |
| rv1974 | A | 9.2 | 0.557 | VQRQSLMPQQTLAAGVFVGALLCGVVTA ^AV | |
| rv1419 | A | 9.1 | 0.695 | MGELRLVGGVLRVLVVVGAVFDVAVLNAGAASA ^DG | |
| rv3106 | A | 9.1 | 0.494 | MRPYYIAIVGSGPSAFFA ^AA | FprA, NADPH ferredoxin reductase? (SCDB) |
| rv1813c | A | 8.9 | 0.584 | MITNLRRRTAMAAAGLGAALGLGILLVPTVDAHL ^AN | |
| rv3013 | A | 8.9 | 0.543 | VRSYLLRIELADRPGSLGSLAVALGSVGA ^DI | |
| rv0199 | A | 8.8 | 0.537 | MFSTYGIASTLLGVLSVAAVVLGAMIWSAHR ^DD | |
| rv0867c | B | 8.8 | 0.616 | MSGRHRKPTTSNVSVAKIAFTGAVLGGGGIAMA ^AQ | Putative pheromone (23) |
| rv2576c | A | 8.8 | 0.669 | MTSVRTVPSAVALVTFAGAALSGVIPAIARA ^DP | |
| rv3170 | A | 8.8 | 0.444 | VTNPPWTVDVVVVGAGFAGLAAA ^RE | Probable monoamine oxidase (SCDB) |
| rv3572 | A | 8.7 | 0.578 | MTRLIPGCTLVGLMLTLLPAPTSAA ^GS | |
| rv0592 | B | 8.6 | 0.413 | MSTIFDIRSLRLPKLSAKVVVVGGLVVVLAVVAAA ^AG | Part of mce-2 operon (SCDB) |
| rv1352 | A | 8.6 | 0.592 | MARTLALRASAGLVAGMAMAAITLAPGARA ^ET | |
| rv1242 | A | 8.5 | 0.555 | VIIPDINLLLYAVITGFPQHRRAHA ^WW | |
| rv0309 | A | 8.4 | 0.537 | MSRLLALLCAAVCTGCVAVVLAPVSLAVVNPWFA ^NS | Heavy-metal-associated domain (PS01047) |
| rv0360c | A | 8.4 | 0.412 | VTKRTITPMTSMGDLLGPEPILLPGDSDAEAELLANESPSIVAA ^AH | |
| rv1804c | A | 8.4 | 0.631 | MRVVSTLLSIPLMIGLAVPAHA ^GP | |
| rv2223c* | B | 8.4 | 0.679 | MAAMWRRRPLSSALLSFGLLLGGLPLAAPPLAGA ^TE | Lipase, serine active site (SCDB) |
| rv1488 | A | 8.3 | 0.721 | VQGAVAGLVFLAVLVIFAIIVVAKSVALIPQAEA ^AV | Hemopexin domain signature (PS00024) |
| rv2290* | B | 8.3 | 0.424 | LTDPRHTVRIAVGATALGVSALGATLPACSAHS ^GP | LppO, similar to 19-kDa antigen (SCDB) |
| rv3207c | A | 8.3 | 0.469 | VSTYGWRAYALPVLMVLTTVVVYQTVTGTSTPRPAAA ^QT | Zn protease (SCDB) |
| rv0203 | B | 8.2 | 0.485 | MKTGTATTRRRLLAVLIALALPGAAVALLAEPSATG ^AS | |
| rv0603 | A | 8.2 | 0.466 | MNRIVQFGVSAVAAAAIGIGAGSGIAAA ^FD | |
| rv1926c* | C | 8 | 0.57 | MKLTTMIKTAVAVVAMAAIATFAAPVALA ^AY | MPT63 (20) |
a
The 52 proteins of M. tuberculosis in the Top208-TM1 subgroup are sorted by decreasing SPScan scores. Genes analyzed by phoA′ fusion technology are marked with asterisks. Set A includes 32 proteins that had no annotations in the Sanger Center database (SCDB) referring to protein topology or subcellular localization, set B includes 13 proteins that were annotated as “probably secreted, or exported, or having a putative signal sequence, or a hydrophobic amino acid stretch at the NH2-terminus,” and set C includes seven proteins known to be secreted by a signal peptide-dependent mechanism (see text). The position of the predicted cleavage site is indicated by a caret. Relevant notes regarding function or identity are based on previously published reports, Sanger Center database annotations, or Blast and PrositeScan searches.