| Low conductance mechanosensitive channel YnaI | ynaI b1330 JW1323 | P0AEB5 | 1 |
| Low specificity L-threonine aldolase (Low specificity L-TA) (EC 4.1.2.48) | ltaE PA5413 | Q9HTF1 | 1 |
| Low-affinity gluconate transporter (Gluconate permease) (Gnt-I system) | gntU b4476 JW5686 | P0AC96 | 1 |
| LPP20 lipoprotein | 0 | Q93T23 | 1 |
| LppC family lipoprotein | B195_12066 | M5QYV6 | 1 |
| LPS-assembly lipoprotein LptE | lptE ABSDF2981 | B0VKQ0 | 1 |
| LPS-assembly lipoprotein LptE | lptE B195_13121 | M5QIF7 | 1 |
| LPS-assembly lipoprotein LptE | lptE VC_0954 | Q9KTE8 | 1 |
| LPS-assembly lipoprotein LptE | lptE VS_0717 | B7VKF6 | 1 |
| LPS-assembly lipoprotein LptE | lptE rlpB STM0647 | Q8ZQZ7 | 1 |
| LPS-assembly lipoprotein LptE | lptE rlpB SF0640 S0662 | Q83LX4 | 1 |
| LPS-assembly lipoprotein LptE | lptE HPSD74_1465 | U4SGW2 | 1 |
| LPS-assembly lipoprotein LptE | lptE rlpB SCH_0677 | Q57RS8 | 1 |
| LPS-assembly lipoprotein LptE | lptE FTT_0991 | Q5NG63 | 1 |
| LPS-assembly protein LptD | ostA2 lptD FTN_0713 | A0Q5U0 | 1 |
| LPS-assembly protein LptD | lptD imp ostA NMB0280 | Q9K187 | 1 |
| LPS-assembly protein LptD | lptD B195_13880 | M5QG17 | 1 |
| LPS-assembly protein LptD | lptD imp ostA VC_0446 | Q9KUR9 | 1 |
| LPS-assembly protein LptD | lptD VS_0373 | B7VIE5 | 1 |
| LPS-assembly protein LptD | lptD imp ostA STM0093 | Q8ZRW0 | 1 |
| LPS-assembly protein LptD | lptD SC1083_1443 | G4A9D3 | 1 |
| LPS-assembly protein LptD | lptD imp ostA SCH_0088 | Q57TG7 | 1 |
| LPS-assembly protein LptD | lptD imp ostA FTT_0467 | Q5NHI7 | 1 |
| LPS-assembly protein LptD (Organic solvent tolerance protein) | lptD ostA NMBH4476_0275 NMH_1010 | F0MIT7 | 1 |
| LVIVD repeat-containing protein | NSU_1240 | G6EA69 | 1 |
| Lys-gingipain (EC 3.4.22.47) (Lysine-specific cysteine proteinase Kgp) [Cleaved into: Lys-gingipain catalytic subunit; 39 kDa adhesin; 15 kDa adhesin; 44 kDa adhesin] | kgp PGN_1728 | B2RLK2 | 1 |
| Lysine decarboxylase | FTN_0504 | A0Q584 | 1 |
| Lysine decarboxylase (EC 4.1.1.18) | Fphi_0341 | B0TZJ9 | 1 |
| Lysine decarboxylase 1 | cadA2 ETAE_0757 | D0ZCX1 | 1 |
| Lysine decarboxylase, inducible (EC 4.1.1.18) | cadA EDWATA_00934 | D4F2I4 | 1 |
| Lysine--tRNA ligase (EC 6.1.1.6) (Lysyl-tRNA synthetase) (LysRS) | lysS MW0472 | Q8NXZ0 | 1 |
| Lysine--tRNA ligase (EC 6.1.1.6) (Lysyl-tRNA synthetase) (LysRS) | lysS A1S_0998 | A3M3D6 | 1 |
| Lysine--tRNA ligase (EC 6.1.1.6) (Lysyl-tRNA synthetase) (LysRS) | lysS lmo0228 | Q8YAB8 | 1 |
| Lysine--tRNA ligase (EC 6.1.1.6) (Lysyl-tRNA synthetase) (LysRS) | lysS AC1_3039 | B1R9X4 | 1 |
| Lysine--tRNA ligase (EC 6.1.1.6) (Lysyl-tRNA synthetase) (LysRS) | lysS BSU00820 | P37477 | 1 |
| Lysine--tRNA ligase (EC 6.1.1.6) (Lysyl-tRNA synthetase) (LysRS) | lysS SPy_0595 M5005_Spy0495 | Q9A0V7 | 1 |
| Lysine--tRNA ligase (EC 6.1.1.6) (Lysyl-tRNA synthetase) (LysRS) | lysS SCH_2980 | Q57K76 | 1 |
| Lysine--tRNA ligase (EC 6.1.1.6) (Lysyl-tRNA synthetase) (LysRS) | lysS SAOUHSC_00493 | Q2G0Q3 | 1 |
| Lysine--tRNA ligase, heat inducible (EC 6.1.1.6) (Lysyl-tRNA synthetase) (LysRS) | lysU b4129 JW4090 | P0A8N5 | 1 |
| Lysine-arginine-ornithine-binding periplasmic protein | VS_1055 | B7VM14 | 1 |
| Lysine/arginine/ornithine-binding periplasmic protein (LAO-binding protein) | argT STM2355 | P02911 | 1 |
| LysM domain protein | HPSD74_0696 | U4SN54 | 1 |
| LysM domain protein | FSU_0847 | C9RL98 | 1 |
| LysM domain protein (EC 3.5.1.28) | SAOUHSC_02855 | Q2FV81 | 1 |
| LysM domain/BON superfamily protein | B195_01895 | M5QNI0 | 1 |
| Lysophospholipase VolA (Vibrio outer membrane lysophospholipase A) | volA VC_A0863 | Q9KL83 | 1 |
| Lysophospholipase_L1_like, Lysophospholipase L1-like protein (EC 3.1.1.2) | OOM_0951 | I2AZ19 | 1 |
| Lysostaphin resistance protein A | lyrA SAOUHSC_02611 | Q2FVT1 | 1 |
| Lysozyme | lytC SPCG_1559 | B2IR92 | 1 |
| LysR family transcriptional regulator | NSU_2148 | G6ECS7 | 1 |
| LysR substrate binding domain protein | EDWATA_02224 | D4F647 | 1 |
| LYTIC MUREIN TRANSGLYCOSYLASE | jhp_0590 | Q9ZLI9 | 1 |
| Lytic murein transglycosylase | B195_13136 | M5QHV5 | 1 |
| Lytic murein transglycosylase | NSU_4331 | G6EJ10 | 1 |
| Lytic murein transglycosylase | NSU_3911 | G6EHU0 | 1 |
| Lytic regulatory protein, putative | SAOUHSC_02390 | Q2FWA8 | 1 |
| Lytic transglycosylase | B195_19531 | M5QUU9 | 1 |
| M protein trans-acting positive regulator | mga SPy_2019 | Q99XU9 | 1 |
| M16 family peptidase | B195_14735 | M5QI72 | 1 |
| M16 peptidase-like protein | B195_14740 | M5QU59 | 1 |
| M18 family aminopeptidase (EC 3.4.11.-) | AC1_0736 | B1RB64 | 1 |
| M18 family aminopeptidase (EC 3.4.11.-) | apeB SAMEA3375059_03654 | A0A160WWM0 | 1 |
| M24 family peptidase (EC 3.4.11.9) | OOM_1700 | I2B0W3 | 1 |
| M38 (Beta-aspartyl dipeptidase) family protein | MXAN_2373 | Q1D9T0 | 1 |
| Macro domain-containing protein lmo2759 | lmo2759 | Q8Y3S3 | 1 |
| Macrodomain Ter protein | matP VSAK1_24675 | A6D8Y9 | 1 |
| Maf-like protein VSAK1_08286 | maf VSAK1_08286 | A6D040 | 1 |
| Magnesium transporter MgtE | mgtE ykoK BSU13300 | O34442 | 1 |
| Major capsid protein | STM14_2448 | A0A0F6B309 | 1 |
| Major cold shock protein CspA | cspA PA3266 | P95459 | 1 |
| Major facilitator family protein | AC3_0541 | B1BNN8 | 1 |
| Major facilitator family transporter | CJD_2702 | B1UYZ1 | 1 |
| Major facilitator family transporter | CPC_2589 | B1BMX7 | 1 |
| Major facilitator family transporter | PP_2553 | Q88JU4 | 1 |
| Major facilitator family transporter | PP_2604 | Q88JP5 | 1 |
| Major Facilitator Superfamily | OOM_0597 | I2AY63 | 1 |
| Major facilitator superfamily (MFS) tranport protein | ampG FTT_0070c | Q5NIJ7 | 1 |
| Major facilitator superfamily (MFS) transport protein | FTN_0620 | A0Q5J8 | 1 |
| Major facilitator superfamily (MFS) transport protein | FTT_0129 | Q5NIE6 | 1 |
| Major facilitator superfamily (MFS) transport protein | yajR FTT_0280c | Q5NI12 | 1 |
| Major facilitator superfamily (MFS) transport protein | FTT_0708 | Q5NGW9 | 1 |
| Major facilitator superfamily (MFS) transport protein | yjhB FTT_1148c | Q5NFS7 | 1 |
| Major Facilitator Superfamily protein | KW89_969 | A0A0K2DV96 | 1 |
| Major Facilitator Superfamily protein | KW89_2666 | A0A0K2E0P8 | 1 |
| Major ferric iron-binding protein (FBP) (Iron(III) periplasmic-binding protein) (Major iron-regulated protein) (MIRP) | fbpA fbp NMA0844 | P0A0Y3 | 1 |
| Major fimbrial subunit protein | etfA | Q84IF8 | 1 |
| Major fimbrium subunit FimA type-1 (Fimbrillin) (Fimbrilin) (Major fimbrial subunit protein type I) | fimA PGN_0180 | B2RH54 | 1 |
| Major fimbrium subunit FimA type-4 (Fimbrillin) (Fimbrilin) (Major fimbrial subunit protein type-4) (FimA4) | fimA PG_2132 | P59914 | 1 |
| Major fimbrium subunit FimC | fimC PGN_0183 | B2RH57 | 1 |
| Major fimbrium tip subunit FimD | fimD PGN_0184 | B2RH58 | 1 |
| Major fimbrium tip subunit FimE | fimE PGN_0185 | B2RH59 | 1 |
| Major head protein | SP70585_0063 | C1C9Q0 | 1 |
| Major outer membrane lipoprotein | VC_A0059 | Q9KNA6 | 1 |
| Major outer membrane lipoprotein (Murein-lipoprotein) | lpp YPO2394 y1943.1 YP_2181 | Q8ZDZ6 | 1 |
| Major outer membrane lipoprotein (Murein-lipoprotein) | lpp SF1706 S1839 | P69780 | 1 |
| Major outer membrane protein P.IA (PIA) (Protein IA) (Class 1 protein) | porA NMBH4476_0791 NMH_1198 | E6MXW0 | 1 |
| Major outer membrane protein P.IA (PIA) (Protein IA) (Class 1 protein) | porA NMB1429 | P0DH58 | 1 |
| Malate dehydrogenase (EC 1.1.1.37) | mdh Fphi_1620 | B0TZT2 | 1 |
| Malate dehydrogenase (EC 1.1.1.37) | mdh ABAYE0465 | B0V6R7 | 1 |
| Malate dehydrogenase (EC 1.1.1.37) | mdh VS_0358 | B7VID0 | 1 |