Table 1.
Protein structure information of bacterial porins and specific diffusion channels. This table lists protein names and biological and structural information of the structures used in our analyses. The size column lists the number of β-strands.
| Groups | Name | Bacteriae | Size | PDB ID | Resolution (Å) |
|---|---|---|---|---|---|
| Monomeric proteins | |||||
| NMP | EcOmpA | Escherichia coli | 8 | 1QJP | 1.7 |
| NMP | KpOmpA | Klebsiella pneumonia | 8 | 2K0L | – |
| NMP | OmpG | Escherichia coli | 14 | 2IWV | 2.3 |
| SMDC | NanC | Escherichia coli | 12 | 2WJR | 1.8 |
| SMDC | KdgM | Dickeya dadantii | 12 | 4FQE | 1.9 |
| SMDC | OprB | Pseudomonas putida | 16 | 4GEY | 2.7 |
| SMDC | OccD | Pseudomonas putida/Pseudomonas fluorescens | 18 | 3SYS, 3SZD, 3SZV, 3T0S, 3T20, 3T24, 4FRT, 4FRX, 4FT6, 4FSO, 4FSP, 3JTY, 3SY7, 3SY9, 3SYB | Average: 2.4 (1.5–3.2) |
| Trimeric proteins | |||||
| NTP | EcOmpC | Escherichia coli | 16 | 2J1N | 2.0 |
| NTP | StOmpC | Salmonella Typhimurium | 16 | 3UPG | 3.2 |
| NTP | OmpK36 | Klebsiella pneumonia | 16 | 1OSM | 3.2 |
| NTP | StOmpF | Salmonella Typhimurium | 16 | 3NSG | 2.8 |
| NTP | EcOmpF | Escherichia coli | 16 | 4GCS | 1.9 |
| NTP | PhoE | Escherichia coli | 16 | 1PHO | 3.0 |
| NTP | RcGDP | Rhodobacter capsulatus | 16 | 2POR | 1.8 |
| NTP | RbGDP | Rhodopseudomonas blastica | 16 | 1PRN | 2.0 |
| NTP | Omp32 | Delftia acidovorans | 16 | 2FGQ | 1.5 |
| STDC | EcMaltoporin | Escherichia coli | 18 | 1AF6 | 2.4 |
| STDC | StMaltoporin | Salmonella Typhimurium | 18 | 2MPR | 2.4 |
| STDC | ScrY | Salmonella Typhimurium | 18 | 1OH2 | 2.4 |
| STDC | OprP | Pseudomonas aeruginosa | 16 | 2O4V | 1.9 |
EcMaltoporin (Escherichia coli maltoporin); EcOmpA (E. coli outer membrane protein A); EcOmpC (E. coli outer membrane protein C); EcOmpF (E. coli outer membrane protein F); KdgM (oligogalacturonate-specific channel); KpOmpA (K. pneumonia outer membrane protein A); NanC (N-acetylneuraminic acid-inducible outer-membrane channel); NMP (non-specific monomeric porins); NTP (non-specific trimeric porin); OccD (outer membrane carboxylate channel); Omp32 (outer membrane protein 32); OmpG (outer membrane protein G); OmpK36 (outer membrane porins of K. pneumoniae); OprB (outer membrane porin B); OprP (outer membrane porin P); PDB ID (Protein Data Bank Identifier); PhoE (phosphoporin); RbGDP (R. blastica general diffusion porin); RcGDP (R. capsulatus general diffusion porin); ScrY (Sugar specific porin); SMDC (specific monomeric diffusion channel); STDC (specific trimeric diffusion channel); StMaltoporin (S. Typhium maltoporin); StOmpC (S. Typhimurium outer membrane protein C); StOmpF (S. Typhimurium outer membrane protein F); Å (Angstrom).