5LKH

Cryo-EM structure of the Tc toxin TcdA1 in its pore state (obtained by flexible fitting)

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	EUF07691	e5lkhA2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: EUF07691	ECOD (1.6)
A	EUF07697	e5lkhA4	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: EUF07697	ECOD (1.6)
A	EUF07706	e5lkhA3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: EUF07706	ECOD (1.6)
A	VRP1	e5lkhA1	A: alpha complex topology	X: TcA alpha-helical shell domain (From Topology)	H: TcA alpha-helical shell domain (From Topology)	T: TcA alpha-helical shell domain	F: VRP1	ECOD (1.6)
B	EUF07691	e5lkhB2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: EUF07691	ECOD (1.6)
B	EUF07697	e5lkhB1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: EUF07697	ECOD (1.6)
B	EUF07706	e5lkhB4	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: EUF07706	ECOD (1.6)
B	VRP1	e5lkhB3	A: alpha complex topology	X: TcA alpha-helical shell domain (From Topology)	H: TcA alpha-helical shell domain (From Topology)	T: TcA alpha-helical shell domain	F: VRP1	ECOD (1.6)
C	EUF07691	e5lkhC2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: EUF07691	ECOD (1.6)
C	EUF07697	e5lkhC4	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: EUF07697	ECOD (1.6)
C	EUF07706	e5lkhC3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: EUF07706	ECOD (1.6)
C	VRP1	e5lkhC1	A: alpha complex topology	X: TcA alpha-helical shell domain (From Topology)	H: TcA alpha-helical shell domain (From Topology)	T: TcA alpha-helical shell domain	F: VRP1	ECOD (1.6)
D	EUF07691	e5lkhD4	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: EUF07691	ECOD (1.6)
D	EUF07697	e5lkhD1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: EUF07697	ECOD (1.6)
D	EUF07706	e5lkhD3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: EUF07706	ECOD (1.6)
D	VRP1	e5lkhD2	A: alpha complex topology	X: TcA alpha-helical shell domain (From Topology)	H: TcA alpha-helical shell domain (From Topology)	T: TcA alpha-helical shell domain	F: VRP1	ECOD (1.6)
E	EUF07691	e5lkhE2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: EUF07691	ECOD (1.6)
E	EUF07697	e5lkhE3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: EUF07697	ECOD (1.6)
E	EUF07706	e5lkhE1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: EUF07706	ECOD (1.6)
E	VRP1	e5lkhE4	A: alpha complex topology	X: TcA alpha-helical shell domain (From Topology)	H: TcA alpha-helical shell domain (From Topology)	T: TcA alpha-helical shell domain	F: VRP1	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E	PF21968	TcdA1, receptor binding domain (TcdA1_RBD_3)	TcdA1, receptor binding domain	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 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	PF21963	TcdA1, receptor binding domain (TcdA1_RBD_2)	TcdA1, receptor binding domain	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 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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E	TcdA1	identical protein binding protein binding binding	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E	IPR018003	Insecticidal toxin complex/plasmid virulence protein	Family
A, B, C, D, E	IPR054141	TcdA1, receptor binding domain 2	Domain
A, B, C, D, E	IPR041079	Neuraminidase-like domain	Domain
A, B, C, D, E	IPR040840	Tc toxin complex TcA, C-terminal TcB-binding domain	Domain
A, B, C, D, E	IPR046839	ABC toxin, N-terminal domain	Domain
A, B, C, D, E	IPR041568	TcA receptor binding domain	Domain
A, B, C, D, E	IPR054144	TcdA1, receptor binding domain 1	Domain

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.

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5LKH

Cryo-EM structure of the Tc toxin TcdA1 in its pore state (obtained by flexible fitting)

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Protein Family Annotation Pfam Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage