| Peptidase S45, penicillin amidase | B195_11081 | M5QUW2 | 1 |
| Peptidase S49 family protein | HPSD74_1977 | U4SA06 | 1 |
| Peptidase T (EC 3.4.11.4) (Aminotripeptidase) (Tripeptidase) (Tripeptide aminopeptidase) | pepT SPy_0799 M5005_Spy0614 | Q9A0F4 | 1 |
| Peptidase, M1 (Aminopeptidase N) family (EC 3.4.11.-) | MXAN_0644 | Q1DEL1 | 1 |
| Peptidase, M16 (Pitrilysin) family (EC 3.4.24.-) | MXAN_1141 | Q1DD72 | 1 |
| Peptidase, M16 (Pitrilysin) family (EC 3.4.24.-) | MXAN_2091 | Q1DAK3 | 1 |
| Peptidase, M16 family | FSU_1159 | D9S9L1 | 1 |
| Peptidase, M16 family (EC 3.4.24.-) | ACINWC136_2908 | K9CBG9 | 1 |
| Peptidase, M23 family | EDWATA_00569 | D4F1H9 | 1 |
| Peptidase, M24 family protein (EC 3.4.-.-) | FTT_0609 | Q5NH62 | 1 |
| Peptidase, M3 (Thimet oligopeptidase) family (EC 3.4.-.-) | MXAN_7104 | Q1CWK6 | 1 |
| Peptidase, M36 (Fungalysin) family (EC 3.4.24.-) | MXAN_6145 | Q1CZ97 | 1 |
| Peptidase, M36 (Fungalysin) family (EC 3.4.24.-) | MXAN_5454 | Q1D176 | 1 |
| Peptidase, M48 family (EC 3.4.24.-) | PFL_5124 | Q4K6D0 | 1 |
| Peptidase, M48 family protein | B195_12211 | M5QHD7 | 1 |
| Peptidase, S8A (Subtilisin) subfamily (EC 3.4.21.-) | MXAN_3285 | Q1D789 | 1 |
| Peptidase, S8A (Subtilisin) subfamily (EC 3.4.21.-) | MXAN_0998 | Q1DDL4 | 1 |
| Peptidase, S9A (Prolyl oligopeptidase) family (EC 3.4.21.-) | MXAN_3129 | Q1D7P1 | 1 |
| Peptidase, U32 family (EC 3.4.-.-) | MXAN_5839 | Q1D047 | 1 |
| Peptidase, U61 family | FTN_1613 | A0Q8A8 | 1 |
| Peptide ABC transporter, ATP-binding protein | VSAK1_12835 | A6D256 | 1 |
| Peptide ABC transporter, peptide-binding protein, putative | SAOUHSC_02767 | Q2FVE7 | 1 |
| Peptide ABC transporter, permease component | VSAK1_12845 | A6D258 | 1 |
| Peptide ABC transporter, permease protein | VSAK1_12850 | A6D259 | 1 |
| Peptide chain release factor 1 (Fragment) | prfA VSAK1_02094 | A6D983 | 1 |
| Peptide chain release factor 1 (RF-1) | prfA prf1 PA4665 | P42806 | 1 |
| Peptide chain release factor 1 (RF-1) | prfA SPy_1141 M5005_Spy0863 | Q99ZP5 | 1 |
| Peptide chain release factor 2 | VSAK1_11188 | A6D8T8 | 1 |
| Peptide chain release factor 2 (RF-2) | prfB SPy_0643 | Q9A0S5 | 1 |
| Peptide chain release factor 3 (RF-3) | prfC SPy_1416 M5005_Spy1155 | P66021 | 1 |
| Peptide chain release factor RF3 (RF-3) | prfC miaD tos b4375 JW5873 | P0A7I4 | 1 |
| Peptide deformylase (EC 3.5.1.88) | fms SPy_0870 | Q9A0A3 | 1 |
| Peptide deformylase (PDF) (EC 3.5.1.88) (Polypeptide deformylase) | def fms STM3406 | Q8ZLM7 | 1 |
| Peptide deformylase (PDF) (EC 3.5.1.88) (Polypeptide deformylase) | def SSON_3427 | Q3YWX3 | 1 |
| Peptide deformylase (PDF) (EC 3.5.1.88) (Polypeptide deformylase) | def SPy_1958 M5005_Spy1669 | P68771 | 1 |
| Peptide methionine sulfoxide reductase MsrA (Protein-methionine-S-oxide reductase) (EC 1.8.4.11) (Peptide-methionine (S)-S-oxide reductase) (Peptide Met(O) reductase) | msrA B195_02833 | M5QZS0 | 1 |
| Peptide methionine sulfoxide reductase MsrA (Protein-methionine-S-oxide reductase) (EC 1.8.4.11) (Peptide-methionine (S)-S-oxide reductase) (Peptide Met(O) reductase) | msrA PA5018 | Q9HUF1 | 1 |
| Peptide methionine sulfoxide reductase MsrA (Protein-methionine-S-oxide reductase) (EC 1.8.4.11) (Peptide-methionine (S)-S-oxide reductase) (Peptide Met(O) reductase) | msrA msrA.2 SPy_0466 M5005_Spy0382 | Q9A149 | 1 |
| Peptide methionine sulfoxide reductase MsrA (Protein-methionine-S-oxide reductase) (EC 1.8.4.11) (Peptide-methionine (S)-S-oxide reductase) (Peptide Met(O) reductase) | msrA NSU_1218 | G6EA47 | 1 |
| Peptide methionine sulfoxide reductase MsrA (Protein-methionine-S-oxide reductase) (EC 1.8.4.11) (Peptide-methionine (S)-S-oxide reductase) (Peptide Met(O) reductase) | msrA OOM_1832 | I2B173 | 1 |
| Peptide methionine sulfoxide reductase MsrA (Protein-methionine-S-oxide reductase) (EC 1.8.4.11) (Peptide-methionine (S)-S-oxide reductase) (Peptide Met(O) reductase) | msrA2 msrA FTT_1797c | Q5NE61 | 1 |
| Peptide methionine sulfoxide reductase MsrA/MsrB [Includes: Peptide methionine sulfoxide reductase MsrA (Protein-methionine-S-oxide reductase) (EC 1.8.4.11) (Peptide-methionine (S)-S-oxide reductase) (Peptide Met(O) reductase); Peptide methionine sulfoxide reductase MsrB (EC 1.8.4.12) (Peptide-methionine (R)-S-oxide reductase)] | msrAB msrA jhp_0210 | Q9ZMK8 | 1 |
| Peptide methionine sulfoxide reductase MsrB (EC 1.8.4.12) (Peptide-methionine (R)-S-oxide reductase) | msrB pilB SAOUHSC_01431 | P0A088 | 1 |
| Peptide methionine sulfoxide reductase-related protein (EC 1.8.4.11) | Fphi_0433 | B0U022 | 1 |
| Peptide-methionine (R)-S-oxide reductase (EC 1.8.4.12) | msrB FTT_0878c | Q5NGG4 | 1 |
| Peptide/opine/nickel uptake transporter (PepT) family protein | oppF FTN_1589 | A0Q884 | 1 |
| Peptidoglycan associated lipoprotein (Omp18) | HP_1125 | O25750 | 1 |
| Peptidoglycan D,D-transpeptidase MrdA (EC 3.4.16.4) (Penicillin-binding protein 2) (PBP-2) | mrdA KU39_2777 | A0A0K2L719 | 1 |
| Peptidoglycan DD transpeptidase (EC 3.4.-.-) (EC 3.4.16.4) | ftsI PP_1331 | Q88N82 | 1 |
| Peptidoglycan hydrolase FlgJ (EC 3.2.1.-) (Muramidase FlgJ) | flgJ fla FX flaZ STM1182 | P15931 | 1 |
| Peptidoglycan-associated lipoprotein | pal EDWATA_03034 | D4F8E1 | 1 |
| Peptidoglycan-associated lipoprotein | pal KPN_00745 | A6T6G7 | 1 |
| Peptidoglycan-associated lipoprotein | B195_07305 | M5R1Y4 | 1 |
| Peptidoglycan-associated lipoprotein | VC_1835 | Q9KR12 | 1 |
| Peptidoglycan-associated lipoprotein | pal SF0556 S0569 | P0A914 | 1 |
| Peptidoglycan-associated lipoprotein | SC1083_1319 | G4A913 | 1 |
| Peptidoglycan-associated lipoprotein | FTT_0842 | Q5NGJ5 | 1 |
| Peptidoglycan-associated lipoprotein Pal | excC YPO1125 | Q7CH55 | 1 |
| Peptidoglycan-associated lipoprotein, OmpA family | Fphi_0466 | B0U055 | 1 |
| Peptidoglycan-associated outer membrane lipoprotein | excC ETAE_2572 | D0ZBT9 | 1 |
| Peptidoglycan-associated protein | NSU_1018 | G6E9J7 | 1 |
| Peptidoglycan-N-acetylglucosamine deacetylase (Peptidoglycan GlcNAc deacetylase) (EC 3.5.1.104) (Peptidoglycan N-deacetylase) (PG N-deacetylase) | pgdA spr1333 | Q8DP63 | 1 |
| Peptidyl-dipeptidase A | NSU_0245 | G6E7B0 | 1 |
| Peptidyl-dipeptidase A (EC 3.4.15.1) | MXAN_3581 | Q1D6F2 | 1 |
| Peptidyl-prolyl cis-trans isomerase (EC 5.2.1.8) | Fphi_1696 | B0U091 | 1 |
| Peptidyl-prolyl cis-trans isomerase (EC 5.2.1.8) | fkpA KPN_03732 | A6TEY5 | 1 |
| Peptidyl-prolyl cis-trans isomerase (EC 5.2.1.8) | B195_20128 | M5QUL1 | 1 |
| Peptidyl-prolyl cis-trans isomerase (EC 5.2.1.8) | fkpA PG_0709 | Q7MWC0 | 1 |
| Peptidyl-prolyl cis-trans isomerase (EC 5.2.1.8) | fkpA STM3453 | Q8ZLL6 | 1 |
| Peptidyl-prolyl cis-trans isomerase (EC 5.2.1.8) | fkpA YPO0195 | Q0WKB1 | 1 |
| Peptidyl-prolyl cis-trans isomerase (EC 5.2.1.8) | fkpA S4397 SF3365 AJR25_012915 AJR27_001375 | Q83JB9 | 1 |
| Peptidyl-prolyl cis-trans isomerase (EC 5.2.1.8) | slyD HPSD74_1244 | U4SIR8 | 1 |
| Peptidyl-prolyl cis-trans isomerase (EC 5.2.1.8) | VSAK1_15372 | A6D705 | 1 |
| Peptidyl-prolyl cis-trans isomerase (EC 5.2.1.8) | OOM_1806 | I2B153 | 1 |
| Peptidyl-prolyl cis-trans isomerase (EC 5.2.1.8) | OOM_0973 | I2AZ40 | 1 |
| Peptidyl-prolyl cis-trans isomerase (EC 5.2.1.8) | fklB FSU_1985 | D9SBK9 | 1 |
| Peptidyl-prolyl cis-trans isomerase (EC 5.2.1.8) | FTT_1043 | Q5NG16 | 1 |
| Peptidyl-prolyl cis-trans isomerase (PPIase) (EC 5.2.1.8) | ppiA KPN_03749 | A6TF02 | 1 |
| Peptidyl-prolyl cis-trans isomerase (PPIase) (EC 5.2.1.8) | VC_2299 | Q9KPR7 | 1 |
| Peptidyl-prolyl cis-trans isomerase (PPIase) (EC 5.2.1.8) | ppiA spr0679 | Q8DQG5 | 1 |
| Peptidyl-prolyl cis-trans isomerase (PPIase) (EC 5.2.1.8) | ppiB PP_2903 | Q88IU6 | 1 |
| Peptidyl-prolyl cis-trans isomerase (PPIase) (EC 5.2.1.8) | ppiA YPO0167 | Q0WKD5 | 1 |
| Peptidyl-prolyl cis-trans isomerase (PPIase) (EC 5.2.1.8) | SC1083_1624 | G4A9V5 | 1 |
| Peptidyl-prolyl cis-trans isomerase (PPIase) (EC 5.2.1.8) | VSAK1_04307 | A6D692 | 1 |
| Peptidyl-prolyl cis-trans isomerase (PPIase) (EC 5.2.1.8) | NSU_0053 | G6E6T2 | 1 |
| Peptidyl-prolyl cis-trans isomerase A (PPIase A) (EC 5.2.1.8) (Cyclophilin A) (Rotamase A) | ppiA rot rotA b3363 JW3326 | P0AFL3 | 1 |
| Peptidyl-prolyl cis-trans isomerase A (PPIase A) (EC 5.2.1.8) (Cyclophilin) (Rotamase A) | ppiA Rv0009 MTCY10H4.08 | P9WHW3 | 1 |
| Peptidyl-prolyl cis-trans isomerase, cyclophilin-type | PG_1226 | Q7MV65 | 1 |
| Peptidyl-prolyl cis-trans isomerase-related protein | NMB1238 | Q9JZ91 | 1 |
| Peptidyl-prolyl cis-trans isomerse D (Fragment) | VSAK1_02444 | A6D8D9 | 1 |
| Peptidyl-tRNA hydrolase (PTH) (EC 3.1.1.29) | pth b1204 JW1195 | P0A7D1 | 1 |
| Peptidyl-tRNA hydrolase (PTH) (EC 3.1.1.29) | pth SPy_0007 M5005_Spy0005 | Q9A206 | 1 |
| Peptidylprolyl isomerase (EC 5.2.1.8) | Fphi_1852 | B0U161 | 1 |
| Peptidylprolyl isomerase (EC 5.2.1.8) | SC1083_1721 | G4AA48 | 1 |
| Peptidylprolyl isomerase (EC 5.2.1.8) | HPSD74_1069 | U4SJV6 | 1 |
| Peptidylprolyl isomerase (EC 5.2.1.8) | ybaU ECs0495 Z0548 | Q8XE55 | 1 |
| Peptidylprolyl isomerase (EC 5.2.1.8) | prsA1 CD630_35000 | Q180Z8 | 1 |
| Peptidylprolyl isomerase (EC 5.2.1.8) | CD196_2119 | A0A0H3N3M1 | 1 |
| Peptidylprolyl isomerase (EC 5.2.1.8) | CD630_15570 | Q18C77 | 1 |
| Peptidylprolyl isomerase (EC 5.2.1.8) | FSU_0239 | C9RPM2 | 1 |