Table 2 Domains that Identify Secretins and Ushers in Shewanella
From: Genome-wide protein localization prediction strategies for gram negative bacteria
Domain | Short Model Descriptor | Secretion System | Proteins Detected | Predicted Localization in Shewanella |
|---|---|---|---|---|
pfam02321 | Outer membrane efflux protein | T1SS1 | AggA | OM |
TIGR01844 | type I secretion outer membrane protein, TolC family | T1SS | TolC, AggA | OM |
TIGR02519 | pilus (MSHA type) biogenesis protein MshL | T2bSS | MshL | OM lipoprotein |
pfam07655 | Secretin N-terminal domain | T2bSS | MshL | OM lipoprotein |
TIGR02515 | type IV pilus secretin (or competence protein) PilQ | T2bSS | PilQ | OM lipoprotein |
pfam00263 | Bacterial type II and III secretion system protein | T2a-cSS, T3aSS | GspD, PilQ, MshL, YscC, RcpA, SspD | mixed |
pfam03958 | Bacterial type II/III secretion system short domain | T2a-bSS, T3aSS | GspD, PilQ, YscC | mixed |
pfam02107 | Flagellar L-ring protein | T3bSS | FlgH | OM lipoprotein |
pfam03524 | Conjugal transfer protein | T4bSS | TrbG | OM |
pfam03895 | YadA-like C-terminal region | T5cSS | Â | OM | extra |
pfam03797 | Autotransporter beta-domain | T5aSS | Â | OM | extra |
pfam06586 | TraK protein | T4bSS | TraK, TrhK | OM |
pfam07660 | Secretin and TonB N terminus short domain | T2bSS2 | PilQ, MshL | OM lipoprotein |
TIGR02516 | type III secretion outer membrane pore, YscC/HrcC family | T3aSS | YscC | OM |
TIGR02756 | type-F conjugative transfer system secretin TraK | T4bSS | TraK | OM |
TIGR03352 | type VI secretion lipoprotein, VC_A0113 family | T6SS | SciN | OM lipoprotein |
pfam00577 | Fimbrial Usher protein | T7SS | PapC/FimD | OM |
pfam03783 | Curli production assembly/transport component CsgG | T8SS | CsgG | OM lipoprotein |