6SLJ
Structure of the RagAB peptide transporter
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A [auth B] | UNK_F_TYPE | e6sljB1 | A: beta barrels | X: Outer membrane meander beta-barrels | H: Porins | T: Ligand-gated protein channel | F: UNK_F_TYPE | ECOD (1.6) |
A [auth B] | Plug | e6sljB2 | A: a+b complex topology | X: N0 domain in phage tail proteins and secretins-like | H: TonB-dependent receptor plug domain (From Topology) | T: TonB-dependent receptor plug domain | F: Plug | ECOD (1.6) |
B [auth A] | UNK_F_TYPE | e6sljA1 | A: beta barrels | X: Outer membrane meander beta-barrels | H: Porins | T: Ligand-gated protein channel | F: UNK_F_TYPE | ECOD (1.6) |
B [auth A] | Plug | e6sljA2 | A: a+b complex topology | X: N0 domain in phage tail proteins and secretins-like | H: TonB-dependent receptor plug domain (From Topology) | T: TonB-dependent receptor plug domain | F: Plug | ECOD (1.6) |
C | SusD_RagB | e6sljC1 | A: alpha superhelices | X: Repetitive alpha hairpins | H: ARM repeat (From Topology) | T: ARM repeat | F: SusD_RagB | ECOD (1.6) |
D | SusD_RagB | e6sljD1 | A: alpha superhelices | X: Repetitive alpha hairpins | H: ARM repeat (From Topology) | T: ARM repeat | F: SusD_RagB | ECOD (1.6) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
A [auth B], B [auth A] | PF00593 | TonB dependent receptor (TonB_dep_Rec) | TonB dependent receptor | - | Family |
A [auth B], B [auth A] | PF07715 | TonB-dependent Receptor Plug Domain (Plug) | TonB-dependent Receptor Plug Domain | The Plug domain has been shown to be an independently folding subunit of the TonB-dependent receptors ([1]). It acts as the channel gate, blocking the pore until the channel is bound by ligand. At this point it under goes conformational changes opens ... | Domain |
PF07980 | SusD family (SusD_RagB) | SusD family | - | Repeat | |
PF14322 | Starch-binding associating with outer membrane (SusD-like_3) | Starch-binding associating with outer membrane | - | Repeat | |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
Chains | Polymer | Molecular Function | Biological Process | Cellular Component |
---|---|---|---|---|
A [auth B], B [auth A] | RagA protein | - | - | |
Lipoprotein RagB | - | - | ||
E [auth P] | ALA-SER-THR-THR-GLY-ALA-ASN-SER-GLN-ARG-GLY-SER-GLY | - | - | - |
F [auth Q] | ALA-SER-THR-THR-GLY-ALA-ASN-SER-GLN-ARG | - | - | - |
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
A [auth B], B [auth A] | IPR037066 | TonB-dependent receptor, plug domain superfamily | Homologous Superfamily |
A [auth B], B [auth A] | IPR023997 | TonB-dependent outer membrane protein SusC/RagA, conserved site | Conserved Site |
A [auth B], B [auth A] | IPR036942 | TonB-dependent receptor-like, beta-barrel domain superfamily | Homologous Superfamily |
A [auth B], B [auth A] | IPR023996 | TonB-dependent outer membrane protein, SusC/RagA | Family |
A [auth B], B [auth A] | IPR000531 | TonB-dependent receptor-like, beta-barrel | Domain |
A [auth B], B [auth A] | IPR012910 | TonB-dependent receptor, plug domain | Domain |
A [auth B], B [auth A] | IPR008969 | Carboxypeptidase-like, regulatory domain superfamily | Homologous Superfamily |
IPR012944 | RagB/SusD domain | Domain | |
IPR011990 | Tetratricopeptide-like helical domain superfamily | Homologous Superfamily | |
IPR033985 | SusD-like, N-terminal | Domain |
Membrane Protein Annotation: PDBTM PDBTM Database Homepage
Chains | External Link | Comment |
---|---|---|
PDBTM | Annotated as membrane protein by PDBTM |
Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage
Chains | External Link | Comment |
---|---|---|
MemProtMD | Annotated as membrane protein by MemProtMD |
Membrane Protein Annotation: mpstruc mpstruc Database Homepage
Chains | Resource Link | Group | Subgroup | Protein |
---|---|---|---|---|
mpstruc | TRANSMEMBRANE PROTEINS: BETA-BARREL | Polysaccharide Utilization Proteins | RagAB peptide transporter |