6RW6

Cryo-EM structure of Photorhabdus luminescens TcdA1


Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
AEUF07624e6rw6A1 A: beta sandwichesX: jelly-rollH: Concanavalin A-likeT: Galactose-binding domain-likeF: EUF07624ECOD (1.6)
AEUF07691e6rw6A3 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: EUF07691ECOD (1.6)
AEUF07697e6rw6A5 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: EUF07697ECOD (1.6)
AEUF07706e6rw6A8 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: EUF07706ECOD (1.6)
AEUF07707e6rw6A7 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: EUF07707ECOD (1.6)
AEUF07856e6rw6A6 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 6-bladedF: EUF07856ECOD (1.6)
ATcdA_poree6rw6A2 A: alpha bundlesX: TcA alpha pore-forming domain (From Topology)H: TcA alpha pore-forming domain (From Topology)T: TcA alpha pore-forming domainF: TcdA_poreECOD (1.6)
AVRP1e6rw6A4 A: alpha complex topologyX: TcA alpha-helical shell domain (From Topology)H: TcA alpha-helical shell domain (From Topology)T: TcA alpha-helical shell domainF: VRP1ECOD (1.6)
BEUF07624e6rw6B1 A: beta sandwichesX: jelly-rollH: Concanavalin A-likeT: Galactose-binding domain-likeF: EUF07624ECOD (1.6)
BEUF07691e6rw6B2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: EUF07691ECOD (1.6)
BEUF07697e6rw6B6 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: EUF07697ECOD (1.6)
BEUF07706e6rw6B7 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: EUF07706ECOD (1.6)
BEUF07707e6rw6B5 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: EUF07707ECOD (1.6)
BEUF07856e6rw6B4 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 6-bladedF: EUF07856ECOD (1.6)
BTcdA_poree6rw6B8 A: alpha bundlesX: TcA alpha pore-forming domain (From Topology)H: TcA alpha pore-forming domain (From Topology)T: TcA alpha pore-forming domainF: TcdA_poreECOD (1.6)
BVRP1e6rw6B3 A: alpha complex topologyX: TcA alpha-helical shell domain (From Topology)H: TcA alpha-helical shell domain (From Topology)T: TcA alpha-helical shell domainF: VRP1ECOD (1.6)
CEUF07624e6rw6C1 A: beta sandwichesX: jelly-rollH: Concanavalin A-likeT: Galactose-binding domain-likeF: EUF07624ECOD (1.6)
CEUF07691e6rw6C2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: EUF07691ECOD (1.6)
CEUF07697e6rw6C5 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: EUF07697ECOD (1.6)
CEUF07706e6rw6C3 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: EUF07706ECOD (1.6)
CEUF07707e6rw6C7 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: EUF07707ECOD (1.6)
CEUF07856e6rw6C4 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 6-bladedF: EUF07856ECOD (1.6)
CTcdA_poree6rw6C8 A: alpha bundlesX: TcA alpha pore-forming domain (From Topology)H: TcA alpha pore-forming domain (From Topology)T: TcA alpha pore-forming domainF: TcdA_poreECOD (1.6)
CVRP1e6rw6C6 A: alpha complex topologyX: TcA alpha-helical shell domain (From Topology)H: TcA alpha-helical shell domain (From Topology)T: TcA alpha-helical shell domainF: VRP1ECOD (1.6)
DEUF07624e6rw6D5 A: beta sandwichesX: jelly-rollH: Concanavalin A-likeT: Galactose-binding domain-likeF: EUF07624ECOD (1.6)
DEUF07691e6rw6D7 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: EUF07691ECOD (1.6)
DEUF07697e6rw6D1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: EUF07697ECOD (1.6)
DEUF07706e6rw6D4 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: EUF07706ECOD (1.6)
DEUF07707e6rw6D6 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: EUF07707ECOD (1.6)
DEUF07856e6rw6D2 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 6-bladedF: EUF07856ECOD (1.6)
DTcdA_poree6rw6D8 A: alpha bundlesX: TcA alpha pore-forming domain (From Topology)H: TcA alpha pore-forming domain (From Topology)T: TcA alpha pore-forming domainF: TcdA_poreECOD (1.6)
DVRP1e6rw6D3 A: alpha complex topologyX: TcA alpha-helical shell domain (From Topology)H: TcA alpha-helical shell domain (From Topology)T: TcA alpha-helical shell domainF: VRP1ECOD (1.6)
EEUF07624e6rw6E8 A: beta sandwichesX: jelly-rollH: Concanavalin A-likeT: Galactose-binding domain-likeF: EUF07624ECOD (1.6)
EEUF07691e6rw6E3 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: EUF07691ECOD (1.6)
EEUF07697e6rw6E7 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: EUF07697ECOD (1.6)
EEUF07706e6rw6E2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: EUF07706ECOD (1.6)
EEUF07707e6rw6E6 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: EUF07707ECOD (1.6)
EEUF07856e6rw6E5 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 6-bladedF: EUF07856ECOD (1.6)
ETcdA_poree6rw6E1 A: alpha bundlesX: TcA alpha pore-forming domain (From Topology)H: TcA alpha pore-forming domain (From Topology)T: TcA alpha pore-forming domainF: TcdA_poreECOD (1.6)
EVRP1e6rw6E4 A: alpha complex topologyX: TcA alpha-helical shell domain (From Topology)H: TcA alpha-helical shell domain (From Topology)T: TcA alpha-helical shell domainF: VRP1ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A, B, C, D, E
PF20220ABC toxin N-terminal region (ABC_toxin_N)ABC toxin N-terminal region- Family
A, B, C, D, E
PF18276Tc toxin complex TcA C-terminal TcB-binding domain (TcA_TcB_BD)Tc toxin complex TcA C-terminal TcB-binding domainThis domain is found in the C-terminal region of the Tc toxin TcA, present in Photorhabdus luminescens. Tc Toxin complexes bind to the cell surface, are endocytosed and perforate the host endosomal membrane by forming channels that translocate toxic ...This domain is found in the C-terminal region of the Tc toxin TcA, present in Photorhabdus luminescens. Tc Toxin complexes bind to the cell surface, are endocytosed and perforate the host endosomal membrane by forming channels that translocate toxic enzymes into the host. This domain is responsible for binding to toxin TcB. Binding of TcA to TcB/TcC opens the beta-propeller gate [1].
Domain
A, B, C, D, E
PF18413Neuraminidase-like domain (Neuraminidase)Neuraminidase-like domain- Repeat
A, B, C, D, E
PF21968TcdA1, receptor binding domain (TcdA1_RBD_3)TcdA1, receptor binding domainThis domain is found in TcdA1 from Photorhabdus luminescens and similar sequences from proteobacteria. TcdA1 is one of the three subunits of the Tc toxins. TcdA1 acts as an injecting device responsible for translocating the actual toxic component int ...This domain is found in TcdA1 from Photorhabdus luminescens and similar sequences from proteobacteria. TcdA1 is one of the three subunits of the Tc toxins. TcdA1 acts as an injecting device responsible for translocating the actual toxic component into host cells. TcA has four receptor-binding domains. This domain is one of 4 receptor binding domains found in TcA. All four domains have an immunoglobulin (Ig)-like beta-sandwich fold of two sheets with antiparallel beta-strands [1,2].
Domain
A, B, C, D, E
PF21963TcdA1, receptor binding domain (TcdA1_RBD_2)TcdA1, receptor binding domainThis domain is found in TcdA1 from Photorhabdus luminescens and similar sequences from gammaproteobacteria. TcdA1 is one of the three subunits of the Tc toxins. TcdA1 acts as an injecting device responsible for translocating the actual toxic componen ...This domain is found in TcdA1 from Photorhabdus luminescens and similar sequences from gammaproteobacteria. TcdA1 is one of the three subunits of the Tc toxins. TcdA1 acts as an injecting device responsible for translocating the actual toxic component into host cells. TcA has four receptor-binding domains. This domain is one of 4 receptor binding domains found in TcA. All four domains have an immunoglobulin (Ig)-like beta-sandwich fold of two sheets with antiparallel beta-strands [1,2].
Domain
A, B, C, D, E
PF18518TcA receptor binding domain (TcA_RBD)TcA receptor binding domainTc toxin complexes are virulence factors of many bacteria such as the plague pathogen Yersinia pestis. Tc toxins are composed of TcA, TcB and TcC subunits. TcA forms a large bell-shaped pentameric structure and enters the membrane like a syringe, for ...Tc toxin complexes are virulence factors of many bacteria such as the plague pathogen Yersinia pestis. Tc toxins are composed of TcA, TcB and TcC subunits. TcA forms a large bell-shaped pentameric structure and enters the membrane like a syringe, forming a translocation channel through which the cytotoxic domain is probably transported into the cytoplasm. TcA has four receptor-binding domains. This domain is one of 4 receptor binding domains found in TcA. All four domains have an immunoglobulin (Ig)-like beta-sandwich fold of two sheets with antiparallel beta-strands. The domains are structurally reminiscent of the receptor-binding domains of the diphtheria and anthrax toxins [1].
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, B, C, D, E
TcdA1 - -