| Putative hemolysin | NMB2091 | Q9JXE1 | 4 |
| Putative iron transport receptor protein | Smlt1148 | B2FRZ9 | 4 |
| Putative lipoprotein | MXAN_6574 | Q1CY27 | 4 |
| Putative lipoprotein | MXAN_0962 | Q1DDQ0 | 4 |
| Putative lipoprotein | MXAN_0283 | Q1DFL0 | 4 |
| Putative lipoprotein NMB1126/NMB1164 | NMB1126; NMB1164 | Q7DDH4 | 4 |
| Putative LppC family lipoprotein | Smlt0742 | B2FNM5 | 4 |
| Putative oar family adhesion protein | Smlt1619 | B2FJB1 | 4 |
| Putative outer membrane antigen lipoprotein | Smlt3215 | B2FLE9 | 4 |
| Putative outer membrane esterase | Smlt3773 | B2FSC8 | 4 |
| Putative outer membrane lipoprotein | Smlt1018 | B2FR78 | 4 |
| Putative outer membrane lipoprotein | Smlt1826 | B2FLX9 | 4 |
| Putative outer membrane Omp family protein | Smlt3805 | B2FSF7 | 4 |
| Putative outer membrane Omp family protein | Smlt4123 | B2FI00 | 4 |
| Putative outer membrane protein | Smlt0614 | B2FLU4 | 4 |
| Putative outer membrane protein | Smlt0955 | B2FQM8 | 4 |
| Putative outer membrane protein NMB0088 | NMB0088 | Q9K1M2 | 4 |
| Putative outer membrane protein P1 | MXAN_7040 | Q1CWS0 | 4 |
| Putative peptidase | Smlt0007 | B2FT85 | 4 |
| Putative peptidoglycan-associated lipoprotein | Smlt3703 | B2FRM8 | 4 |
| Putative pili chaperone protein | Smlt0707 | B2FNJ1 | 4 |
| Putative porin P (Outer membrane protein d1) | oprP Smlt3943 | B2FTT7 | 4 |
| Putative subfamily M23B unassigned peptidase | Smlt1724 | B2FK97 | 4 |
| Putative subfamily S1C unassigned peptidase | Smlt3553 | B2FQC5 | 4 |
| Putative TonB dependent receptor | Smlt3340 | B2FN47 | 4 |
| Putative TonB dependent receptor | Smlt3444 | B2FP16 | 4 |
| Putative TonB dependent receptor protein | Smlt0083 | B2FU42 | 4 |
| Putative TonB dependent receptor protein | Smlt0359 | B2FJ30 | 4 |
| Putative TonB dependent receptor protein | Smlt3254 | B2FM99 | 4 |
| Putative vitamin B12 receptor protein | Smlt0585 | B2FLR8 | 4 |
| Putrescine-binding periplasmic protein | NGO_1494 | Q5F6Q5 | 4 |
| Putrescine-binding periplasmic protein | NGO_1253 | Q5F7C5 | 4 |
| Pyridoxine/pyridoxal/pyridoxamine kinase (PN/PL/PM kinase) (EC 2.7.1.35) (B6-vitamer kinase) | pdxK AKG99_14835 BHF46_01125 BV389_12650 ERS085386_00090 UN91_13845 | A0A066QR88 | 4 |
| Pyruvate dehydrogenase E1 component (EC 1.2.4.1) | aceE NGO_0565 | Q5F939 | 4 |
| Pyruvate oxidase (EC 1.2.3.3) | spxB spr0642 | Q8DQJ4 | 4 |
| Queuine tRNA-ribosyltransferase (EC 2.4.2.29) (Guanine insertion enzyme) (tRNA-guanine transglycosylase) | tgt AML07_05415 APZ14_19320 FORC28_4684 | A0A0F3USV4 | 4 |
| Regulator of ribonuclease activity B | yjgD rraB ECRM12581_27125 | A0A023Z7F9 | 4 |
| Riboflavin biosynthesis protein (EC 2.7.1.26) (EC 2.7.7.2) | NGO_0068 | Q5FAF6 | 4 |
| Ribokinase (RK) (EC 2.7.1.15) | rbsK_2 rbsK A4T40_24375 BE932_18020 BK248_08165 BK334_15990 ECONIH1_22090 MS6198_43200 SY51_21390 WM48_20730 | A0A061KEC0 | 4 |
| Ribonuclease E (RNase E) (EC 3.1.26.12) | rne NGO_1785 | Q5F5Y3 | 4 |
| Ribonuclease R (RNase R) (EC 3.1.13.1) | rnr PA4937 | Q9HUM7 | 4 |
| Ribose-phosphate pyrophosphokinase (RPPK) (EC 2.7.6.1) (5-phospho-D-ribosyl alpha-1-diphosphate) (Phosphoribosyl diphosphate synthase) (Phosphoribosyl pyrophosphate synthase) (P-Rib-PP synthase) (PRPP synthase) (PRPPase) | prs NGO_0441 | Q5F9F5 | 4 |
| Ribosomal protein L11 methyltransferase (L11 Mtase) (EC 2.1.1.-) | prmA BX52_07560 | A0A0E2U9X4 | 4 |
| Ribosomal RNA large subunit methyltransferase K/L [Includes: 23S rRNA m7G2069 methyltransferase (EC 2.1.1.264) (rRNA (guanine-N(7)-)-methyltransferase RlmK); 23S rRNA m2G2445 methyltransferase (EC 2.1.1.173) (rRNA (guanine-N(2)-)-methyltransferase RlmL)] | rlmL ycbY AC789_1c09880 AKG99_06160 AML35_25590 APT94_18470 BE949_12200 BHF46_13525 BIQ85_05745 BK373_25370 BK375_14315 BK383_07125 BMT53_05340 BMT97_10125 BUE82_15200 BXT93_03330 ERS085386_02061 GJ11_05210 MJ49_01415 UC41_00625 WR15_11740 | A0A023LCR0 | 4 |
| Ribosomal RNA small subunit methyltransferase B (EC 2.1.1.176) (16S rRNA m5C967 methyltransferase) (rRNA (cytosine-C(5)-)-methyltransferase RsmB) | rsmB sun BE932_15385 SY51_18895 | A0A066SYQ7 | 4 |
| Ribulose-phosphate 3-epimerase (EC 5.1.3.1) (Pentose-5-phosphate 3-epimerase) (PPE) (R5P3E) | rpe Z4739 ECs4228 | P0AG09 | 4 |
| RNA helicase | NGO_0650 | Q5F8W0 | 4 |
| RNA polymerase sigma factor RpoD (Sigma-70) | rpoD NGO_0999 | Q5F805 | 4 |
| RNA polymerase-binding transcription factor DksA | dksA NGO_1904 | Q5F5L9 | 4 |
| RNA-binding protein | NGO_1906 | Q5F5L7 | 4 |
| S-(hydroxymethyl)glutathione dehydrogenase (EC 1.1.1.284) (Alcohol dehydrogenase class-3) (EC 1.1.1.1) (Alcohol dehydrogenase class-III) (Glutathione-dependent formaldehyde dehydrogenase) (FALDH) (FDH) (GSH-FDH) (EC 1.1.1.-) | frmA Ecok1_03310 APECO1_1645 | A1A835 | 4 |
| S-adenosylmethionine synthase (AdoMet synthase) (EC 2.5.1.6) (MAT) (Methionine adenosyltransferase) | metK NGO0106 | Q5FAC0 | 4 |
| S-ribosylhomocysteine lyase (EC 4.4.1.21) (AI-2 synthesis protein) (Autoinducer-2 production protein LuxS) | luxS NGO2102 | Q5F534 | 4 |
| S-transferase (Thiol:disulfide oxidoreductase) | BE932_13760 SY51_17305 | A0A061YDG6 | 4 |
| SAM-dependent methyltransferase | NGO_0668 | Q5F8U2 | 4 |
| Secreted protein | LMRG_00784 | A0A0H3GG31 | 4 |
| Septum formation inhibitor Maf | NGO_0225 | Q5FA09 | 4 |
| Septum formation inhibitor Maf | NGO_1585 | Q5F6H3 | 4 |
| Septum formation inhibitor Maf | NGO_1392 | Q5F6Z7 | 4 |
| Septum formation inhibitor Maf | NGO_1971 | Q5F5F7 | 4 |
| Septum formation inhibitor Maf | NGO_1068 | Q5F7U9 | 4 |
| Serine hydroxymethyltransferase (SHMT) (Serine methylase) (EC 2.1.2.1) | glyA NGO0866 | Q5F8C0 | 4 |
| Serine hydroxymethyltransferase (SHMT) (Serine methylase) (EC 2.1.2.1) | glyA spr0928 | Q8DPZ0 | 4 |
| Serine hydroxymethyltransferase (SHMT) (Serine methylase) (EC 2.1.2.1) | glyA BV389_12405 UN91_26435 | A0A0F3UV94 | 4 |
| Serine--tRNA ligase (EC 6.1.1.11) (Seryl-tRNA synthetase) (SerRS) (Seryl-tRNA(Ser/Sec) synthetase) | serS NGO1335 | Q5F752 | 4 |
| Serine--tRNA ligase (EC 6.1.1.11) (Seryl-tRNA synthetase) (SerRS) (Seryl-tRNA(Ser/Sec) synthetase) | serS AC789_1c09310 | A0A0E1L9D5 | 4 |
| Serine/threonine protein kinase | LMRG_00967 | A0A0H3GI69 | 4 |
| Sialidase A (EC 3.2.1.18) (Neuraminidase A) | nanA spr1536 | P62576 | 4 |
| Signal peptidase I (EC 3.4.21.89) | NGO_0343 | Q5F9Q0 | 4 |
| Signal recognition particle protein (Fifty-four homolog) | ffh NGO_1700 | Q5F666 | 4 |
| Simple sugar transport system ATP-binding protein | LMRG_00841 | A0A0H3GG78 | 4 |
| Single-stranded DNA-binding protein (SSB) | NGO_1031 | Q5F7Y0 | 4 |
| Siroheme synthase [Includes: Sirohydrochlorin ferrochelatase (EC 4.99.1.4); Precorrin-2 dehydrogenase (EC 1.3.1.76); Uroporphyrinogen-III C-methyltransferase (Urogen III methylase) (EC 2.1.1.107) (Uroporphyrinogen III methylase) (UROM) (SUMT)] | cysG BY96_07205 | A0A027U111 | 4 |
| Site-determining protein | minD PA3244 | Q9HYZ6 | 4 |
| Sortase A | LMRG_02028 | A0A0H3GJ05 | 4 |
| Spore cortex protein | NGO_2054 | Q5F576 | 4 |
| Stomatin 2 | NGO_0788 | Q5F8I5 | 4 |
| Succinate--CoA ligase [ADP-forming] subunit alpha (EC 6.2.1.5) (Succinyl-CoA synthetase subunit alpha) (SCS-alpha) | sucD E2348C_0608 | B7ULK5 | 4 |
| Succinyldiaminopimelate aminotransferase | NGO_0460 | Q5F9D9 | 4 |
| Succinylglutamate desuccinylase (EC 3.5.1.96) | astE BE932_04175 SY51_09695 | A0A066SW01 | 4 |
| Succinylornithine transaminase/acetylornithine aminotransferase (ACOAT) (SOAT) (Succinylornithine aminotransferase) (EC 2.6.1.11) (EC 2.6.1.81) | aruC argD astC PA0895 | O30508 | 4 |
| Superoxide dismutase [Cu-Zn] (EC 1.15.1.1) | sodC1 Smlt0160 | B2FHC6 | 4 |
| Surface protein pspA | pspA spr0121 | Q8DRI0 | 4 |
| Tetratricopeptide repeat family protein | NGO_0747 | Q5F8M3 | 4 |
| Tetratricopeptide repeat protein | BE932_27305 SY51_03725 | A0A066T6P3 | 4 |
| Thiamine ABC transporter substrate-binding protein (Thiamine transporter substrate binding subunit) | tbpA BE932_23395 SY51_00405 | A0A061YL54 | 4 |
| Thiol-activated cytolysin | LMRG_02624 | A0A0H3GD84 | 4 |
| Thiol:disulfide interchange protein | NGO_1438 | Q5F6V7 | 4 |
| Thiol:disulfide interchange protein DsbA | dsbA PA5489 | P0C2B2 | 4 |
| Thiol:disulfide interchange protein DsbD (EC 1.8.1.8) (Protein-disulfide reductase) (Disulfide reductase) | dsbD NGO_0978 | Q5F823 | 4 |
| TonB-dependent receptor | MXAN_1450 | Q1DCB6 | 4 |
| TonB-dependent receptor | NGO_0952 | Q5F845 | 4 |
| Transaldolase (EC 2.2.1.2) | tal NGO1610 | Q5F6E9 | 4 |
| Transcription termination factor Rho (EC 3.6.4.-) (ATP-dependent helicase Rho) | rho NGO_0199 | Q5FA35 | 4 |
| Transcription termination/antitermination protein NusA | nusA NGO_1285 | Q5F798 | 4 |
| Transcriptional regulator | NGO_0718 | Q5F8P9 | 4 |
| Transcriptional regulator LytR | LMRG_01730 | A0A0H3GKG2 | 4 |
| Transferrin-binding protein 2 | NGO_1496 | Q5F6Q3 | 4 |
| Transketolase (EC 2.2.1.1) | NGO_1028 | Q5F7Y3 | 4 |
| Translation initiation factor IF-2 | infB NGO1286 | Q5F797 | 4 |