Table 1.
Proteins that have been experimentally identified as secreted in one of the reported papers or predicted based on a secretion signal
| Label | Name and/or function | Ref. | PDB code | UniProtKB |
| Outer membrane proteins (Omps) | ||||
| HP0009 | Outer membrane protein (Omp1), HopZ | y | Q7X2J7 | |
| HP0025 | Outer membrane protein (Omp2) | b’, y | O24870 | |
| HP0078/79 | Outer membrane protein (Omp3) | y | O24907/O24908 | |
| HP0127 | Outer membrane protein (omp4), HorB | b’, y, z | O24941 | |
| HP0227 | Outer membrane protein (Omp5) | b’, y | O34523 | |
| HP0229 | Outer membrane protein (Omp6) | b’, y, z | O25015 | |
| HP0232 | UPF0323 lipoprotein HP_0232 | b | O25018 | |
| HP0252 | Outer membrane protein (Omp7), HopF | b’, y | O25034 | |
| HP0253 | Outer membrane protein (Omp8) | y | O25035 | |
| HP0317 | Outer membrane protein (Omp9) | b’, y | O25086 | |
| HP0324 | Outer membrane protein (Omp10) | y | O25091 | |
| HP0410 | Putative neuraminyllactose-binding hemagglutinin | z | O25166 | |
| HP0472 | Outer membrane protein (Omp11) | b’, y, z | O25218 | |
| HP0477 | Outer membrane protein (Omp12) | y | O25222 | |
| HP0486 | Putative outer membrane protein, HofC | b’, y | O25230 | |
| HP0487 | Putative outer membrane protein, HofD | b’ | O25231 | |
| HP0638 | Outer membrane protein (Omp13) | y | O25355 | |
| HP0671 | Outer membrane protein (Omp14) | b’, y | O25382 | |
| HP0694 | Putative outer membrane protein | b’, y | O25401 | |
| HP0706 | Outer membrane protein (Omp15) | b’, z | O25410 | |
| HP0710 | Outer membrane protein (HomA) | z | O25414 | |
| HP0722 | Outer membrane protein (Omp16) | y | ||
| HP0725 | Outer membrane protein (Omp17) | y | Q7X2J9 | |
| HP0797 | Neuraminyllactose-binding hemagglutinin, HpaA | b, y | 3BGH | P55969 |
| HP0896 | Outer membrane protein (Omp19). BabB | b’, y | O25556 | |
| HP0912 | Outer membrane protein (omp20), AlpA | q, u, b’, y, z | O25570 | |
| HP0913 | Outer membrane protein (omp21) | q, u, b’, y | O25571 | |
| HP0923 | Outer membrane protein (Omp22) | y | O25580 | |
| HP1107 | Outer membrane protein (Omp23) | b’, y | O25735 | |
| HP1125 | Outer membrane protein (Omp18), peptidoglycan-associated lipoprotein, PAL | s, y | O25625 | |
| HP1156 | Outer membrane protein (Omp25) | y | O25771 | |
| HP1157 | Outer membrane protein (Omp26) | y | O25772 | |
| HP1177 | Outer membrane protein (Omp27), HopO | b’, y | O25791 | |
| HP1243 | Outer membrane protein (Omp28) BabA | b’, y | O25840 | |
| HP1342 | Outer membrane protein (Omp29) | b’, y | O34523 | |
| HP1395 | Outer membrane protein (Omp30) | y, z | O25945 | |
| HP1456 | Lpp20 lipoprotein | b, y, z | P0A0V0 | |
| HP1469 | Outer membrane protein (Omp31) | b’, y | O26005 | |
| HP1501 | Outer membrane protein, HopW | y, z | O26031 | |
| HP1512 | Iron regulated outer membrane protein | y | O26042 | |
| HP1564 | Outer membrane protein, lipoprotein | u, y | O26084 | |
| HP1571 | RlpA-like lipoprotein | b, y | O26091 | |
| HP0284 | Mechanosensitive ion channel membrane protein | b’ | O25059 | |
| Cag proteins | ||||
| HP0528 | CagX, Cag8 | b’ | O25263 | |
| HP0529 | CagW, Cag9 | b’ | O25264 | |
| HP0532 | CagT, Cag12 | b | P97245 | |
| HP0537 | CagM, Cag16 | b’ | O25270 | |
| HP0540 | CagI, Cag19 | b’ | O25273 | |
| HP0545 | CagD | z | 3CWX, 3CWY | O25277 |
| HP0546 | Cag25 | b’ | O25278 | |
| HP0547 | CagA, Cag26 | b’, y | 4G0H, 4DVY, 4DVZ, 3IEC | P55980 |
| Flagellar components | ||||
| HP0115 | Flagellin B, FlaB | y | Q07911 | |
| HP0126 | Flagellar P-ring protein, FlgL | b | O25028 | |
| HP0295 | Flagellar hook-associated protein 3, HAP3 | y | O25068 | |
| HP0325 | Flagellar L-ring protein | b | O25092 | |
| HP0601 | Flagellin A, FlaA | v, y | P0A0S1 | |
| HP0752 | Flagellar hook-associated protein 2, HAP2 | z | P96786 | |
| HP0870 | Flagellar hook protein FlgE | a, y | P50610 | |
| HP0907 | Hook flagella assembly protein FlgD | a, q | O25565 | |
| HP1119 | Flagellar hook-associated protein 1, HAP1 | y | O25744 | |
| HP1462 | Secreted protein involved in flagellar motility | y | O25998 | |
| HP1557 | Flagellar hook-basal body protein FliE | a | P67708 | |
| Binding or transport proteins | ||||
| HP0243 | Neutophil-activating protein, HP-NAP | y, z | 1JI4, 4EVB, 4EVC, 4EVD, 4EVE, 3T9J, 3TA8 | P43313 |
| HP0298 | Periplasmic dipeptide-binding protein, DppA | z | O25069 | |
| HP0508 | Plasminogen-binding protein pgbA | b’ | O25249 | |
| HP0888/ | Iron (III) dicitrate ABC transporter, ATP-binding protein | v | O05732 | |
| HP0889 | ||||
| HP0970 | Nickel-cobalt-cadmium import protein (NccB) | b’ | O25623 | |
| HP1073 | Copper-binding protein, CopP | z | 1YG0 | Q48271 |
| HP1252 | Oligopeptide ABC transporter periplasmic oligopeptide-binding protein (OppA) | b’ | O25845 | |
| HP1286 | YceI-like acidic stress response, lipocalin | a, e, l, u, b’, z | 3HPE | O25873 |
| HP1561/ | ABC transporter periplasmic binding protein (CeuE) | b’ | O26083/ | |
| HP1562 | O26082 | |||
| VacA and other toxins | ||||
| HP0289 | VacA-like protein, ImaA | d | O25063 | |
| HP0609/HP0610 | VacA-like protein, FaaA | d | O25330/ | |
| O25531 | ||||
| HP0887 | Vacuolating cytotoxin VacA | a, b, g, u, z | 2QV3 | P55981 |
| HP0922 | VacA-like protein, VlpC | d | O25579 | |
| HP0596 | Tumor necrosis factor α-inducing protein, Tip-α | f, m, n | 3VNC, 3GUQ, 3GIO, 2WCQ, 2WCR | O25318 |
| Enzymes | ||||
| Redox systems and the electron transport chain | ||||
| HP0224 | Peptide methionine sulfoxide reductase MsrA/MsrB | b’ | O25011 | |
| HP0231 | Disulphide interchange protein (DsbG, or DscB or HpDsbA) | a, q, u | 3TDG | O25017 |
| HP0330 | Ketol-acid reductoisomerase, IlvC | z | O25097 | |
| HP0377 | Thiol-disulfide interchange protein DsbC | a, b’ | 4FYB, 4FYC | O25140 |
| HP0389 | Superoxide dismutase, SOD | x | 3CEI | P43312 |
| HP0390 | Adhesin-thiol peroxidase, TagD | y | O25151 | |
| HP0485 | Catalase-like protein | b’ | O25229 | |
| HP0824 | Thioredoxin TrxA | a, w | P66928 | |
| HP0825 | Thioredoxin reductase, trxB | b’ | 3ISH, 2Q0K, 2Q0L | P56431 |
| HP0875 | Catalase, katA | x, b’,z | 2IQF, 2A9E, 1QWL, 1QWM | P77872 |
| HP1136 | ATP synthase subunit b | b’ | P56086 | |
| HP1161 | Flavodoxin FldA | a | 2W5U, 2BMV, 1FUE | O25776 |
| HP1212 | ATP synthase subunit c | b’ | P56087 | |
| HP1227 | Cytochrome c-553 | b | O25825 | |
| HP1266 | NADH-ubiquinone oxidoreductase, NQO3 subunit | z | O25856 | |
| HP1458 | Thioredoxin TrxC | a, u, z | O25996 | |
| HP1461 | Cytochrome c551 peroxidase | b’ | O25997 | |
| Putative solenoid proteins | ||||
| HP0160 | Beta-lactamase HcpD | b, o, p | O24968 | |
| HP0211 | Beta-lactamase HcpA, Cysteine-rich 28 kDa protein | b, o, p, b’ | O25001 | |
| HP0235 | Beta-lactamase HcpE | b, o, p, b’ | O25021 | |
| HP0336 | Beta-lactamase HcpB | o | 1KLX | O25103 |
| HP1098 | Beta-lactamase, Cysteine-rich protein C HcpC | a, b, o, q, t, b’, z | 1OUV | O25728 |
| HP0519 | Hypothetical Sel1-like protein | p | Q7X5D6 | |
| HP0628 | Hypothetical Sel1-like protein | p | O25345 | |
| HP1117 | Hypothetical Sel1-like protein, Cys-rich protein X | p | O25742 | |
| HP1124 | Tetratricopeptide-like repeat protein | b’ | O25749 | |
| Proteases | ||||
| HP0570 | Aminopeptidase, PepA | z | O25294 | |
| HP0657 | Processing protease (YmxG) | b’, z | O25371 | |
| HP1012 | Putative Zinc protease | z | O25656 | |
| HP1018/HP1019 | Serine protease (HtrA) | a, f, q, r, z | O25663 | |
| HP1037 | Amino peptidase | b’ | O25681 | |
| HP1350 | Carboxyl-terminal protease | z | O25905 | |
| Other enzymes | ||||
| HP0026 | Citrate synthase | z | P56062 | |
| HP0072 | Urease B (UreB) | a, q, v, y | 1E9Y, 1E9Z | P69996 |
| HP0073 | Urease A (UreA) | y | 1E9Y, 1E9Z | P14916 |
| HP0154 | Enolase, phosphopyruvate hydratase, eno | z | P48285 | |
| HP0194 | Triosephosphate isomerase, tpiA | b’ | 2JGQ | P56076 |
| HP0275 | ATP-dependent nuclease (addB) | b’, z | O25025 | |
| HP0294 | Aliphatic amidase, AimE | z | O25067 | |
| HP0310 | Polysaccharide deacetylase | z | 3QBU, 4LY4 | O25080 |
| HP0323 | Membrane-bound endonuclease (nuc) | b’, y | O25090 | |
| HP0380 | Glutamate dehydrogenase | z | P55990 | |
| HP0392 | Histidine kinase, CheA | b’ | O25153 | |
| HP0672 | Member of the PLP-dependent aminotransferase superfamily clan, AspB | z | 3EZS | O25383 |
| HP1118 | γ-Glutamyltranspetptidase | a, q, b’, z | 3FNM, 2QM6, 2QMC, 2NQO | O25743 |
| HP1178 | Purine nucleoside phosphorylase DeoD-type | b’ | P56463 | |
| HP1186 | Carbonic anhydrase | a, q, z | O25798 | |
| HP1375 | UDP-N-acetylglucosamine acyltransferase, LpxA | z | 1J2Z | O25927 |
| Others | ||||
| HP0010 | GroEL, HSP60 | c | P42383 | |
| HP0011 | GroES | z | P0A0R3 | |
| HP0166 | Response regulator, ArsS | z | O24973 | |
| HP0305 | Putative human regulator of G protein signaling 12 | u, b | O25076 | |
| HP0743 | Rod shape-determining protein | y | P56098 | |
| HP1000 | PARA protein | b’ | O25646 | |
| HP1126 | Protein TolB | b | O25751 | |
| HP0827 | ssDNA-binding 12RNP2 precursor | u | 2KI2 | O25501 |
| HP0835 | Histone-like DNA-binding protein HU | u | O25506 | |
| HP1v1 | Ribosomal protein L1 | u | P56029 | |
| HP1202 | Ribosomal protein L11 | u | P66052 | |
| Hypothetical proteins | ||||
| HP0122 | Hypothetical uncharacterized protein | b | P64653, O24940 | |
| HP0129 | Hypothetical uncharacterized protein | u | O24943 | |
| HP0130 | Hypothetical uncharacterized protein | b’ | O24944 | |
| HP0135 | Hypothetical uncharacterized protein | b | P64655, O24948 | |
| HP0149 | Hypothetical uncharacterized protein | b’ | O24960 | |
| HP0169 | Hypothetical secreted colagenase | b | P56113 | |
| HP0204 | Hypothetical uncharacterized protein | b’ | O24996 | |
| HP0367 | Hypothetical uncharacterized protein | a | O25131 | |
| HP0555 | Hypothetical uncharacterized protein | b’ | O25382 | |
| HP0583 | Hypothetical uncharacterized protein | b’ | O25305 | |
| HP0659 | SurA N-terminal domain protein, SurA chaperone of outer membrane proteins | b’ | O25373 | |
| HP0719 | Hypothetical uncharacterized protein | b’ | O25421 | |
| HP0720 | Hypothetical uncharacterized protein | u | K4NCD4 | |
| HP0721 | Sialic acid-specific adhesion, metal homeostasis | i, u | 2XRH | O25423 |
| HP0781 | Hypothetical uncharacterized protein | b’ | O25470 | |
| HP0783 | Hypothetical uncharacterized protein | b’ | O25742 | |
| HP0902 | Hypothetical uncharacterized protein | u | O25562 | |
| HP0953 | Hypothetical uncharacterized protein | b’, z | O25607 | |
| HP0973 | Hypothetical uncharacterized protein | u, b’ | O26525 | |
| HP1023 | Hypothetical uncharacterized protein | b’ | O25270 | |
| HP1055 | Hypothetical uncharacterized protein | b’ | O25695 | |
| HP1056 | Hypothetical uncharacterized protein | b’ | O25696 | |
| HP1057 | Hypothetical uncharacterized protein | b’ | O25697 | |
| HP1173 | Hypothetical uncharacterized protein | a, b, z | O25787 | |
| HP1285 | lipoprotein, e(P4) family | b’, z | O25872 | |
| HP1454 | Hypothetical uncharacterized protein | a, z | O25993 | |
| HP1527 | Hypothetical uncharacterized protein | b’ | O26055 | |
| HP1580 | Hypothetical uncharacterized protein | b’ | O26100 | |
The first column refers to the symbol for strain ACT 700392/26695, the third to the reference, the forth to the PDB ID code if the X-ray structure has been determined, and the fifth to the UniProtKB code. The proteins are grouped according to their function, as explained in the text. a[20], b’[23]; (b refers to proteins having a signal peptide as reported in Supplementary Table mmc4 of reference[23]), c[142], d[84], e[72], f[151], g[152], h[153], i[148], l[74], m[154], n[88], o[112], p[116], q[123], r[119], s[155], t[156], u[21], v[75], w[91], x[102], y[17], z[22].