2EBF | pdb_00002ebf

Crystal structures reveal a thiol-protease like catalytic triad in the C-terminal region of Pasteurella multocida toxin

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A [auth X]	d2ebfx1	All alpha proteins	PMT central region-like	PMT central region-like	PMT central region-like	Dermonecrotic toxin, ToxA	(Pasteurella multocida ) [TaxId: 747 ],	SCOPe (2.08)
A [auth X]	d2ebfx2	Alpha and beta proteins (a/b)	EreA/ChaN-like	EreA/ChaN-like	PMT domain-like	Dermonecrotic toxin, ToxA	(Pasteurella multocida ) [TaxId: 747 ],	SCOPe (2.08)
A [auth X]	d2ebfx3	Alpha and beta proteins (a+b)	Cysteine proteinases	Cysteine proteinases	PMT C-terminal domain like	Dermonecrotic toxin, ToxA	(Pasteurella multocida ) [TaxId: 747 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth X]	SCOP2 Family	PMT central region-like	8021525	4001607	SCOP2 (2022-06-29)
A [auth X]	SCOP2 Family	PMT domain-like	8021527	4002144	SCOP2 (2022-06-29)
A [auth X]	SCOP2 Family	PMT C-terminal domain like	8021528	4002524	SCOP2 (2022-06-29)
A [auth X]	SCOP2 Superfamily	PMT central region-like	8033905	3001977	SCOP2 (2022-06-29)
A [auth X]	SCOP2 Superfamily	EreA/ChaN-like	8033907	3000873	SCOP2 (2022-06-29)
A [auth X]	SCOP2 Superfamily	Cysteine proteinases	8033908	3001808	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A [auth X]	MLD	e2ebfX1	A: alpha bundles	X: Bromodomain-like	H: PMT helical bundle domain-like	T: PMT helical bundle domain-like	F: MLD	ECOD (develop294)
A [auth X]	PMT_C2	e2ebfX2	A: a+b two layers	X: PMT central region-like	H: PMT central region-like	T: PMT central region-like	F: PMT_C2	ECOD (develop294)
A [auth X]	PMT_C3	e2ebfX3	A: few secondary structure elements	X: Cysteine proteinases-like	H: Cysteine proteinases	T: Cysteine proteinases	F: PMT_C3	ECOD (develop294)
A [auth X]	PMT_C2	e2ebfX4	A: alpha bundles	X: EreA/ChaN-like	H: EreA/ChaN-like	T: EreA/ChaN-like	F: PMT_C2	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth X]	3.10.670.10	Alpha Beta	Roll	Secreted effector protein ssei fold	Secreted effector protein ssei.	CATH (4.3.0)
A [auth X]	1.20.140.180	Mainly Alpha	Up-down Bundle	Butyryl-CoA Dehydrogenase, subunit A	domain 3	CATH (4.3.0)
A [auth X]	3.40.50.11550	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth X]	Dermonecrotic toxin	phospholipase activity hydrolase activity, acting on ester bonds glycerophospholipase activity hydrolase activity catalytic activity lipase activity toxin activity binding phospholipid binding lipid binding	symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms symbiont-mediated perturbation of host process symbiont-mediated perturbation of host cell cycle progression modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated perturbation of host G protein-coupled receptor signal transduction pathway symbiont-mediated perturbation of host receptor-mediated signal transduction symbiont-mediated perturbation of host signal transduction pathway cellular process disruption of cell in another organism disruption of anatomical structure in another organism symbiont-mediated killing of host cell symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms symbiont-mediated perturbation of host process symbiont-mediated perturbation of host cell cycle progression modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated perturbation of host G protein-coupled receptor signal transduction pathway symbiont-mediated perturbation of host receptor-mediated signal transduction symbiont-mediated perturbation of host signal transduction pathway cellular process disruption of cell in another organism disruption of anatomical structure in another organism symbiont-mediated killing of host cell killing of cells of another organism cell killing	cellular anatomical structure extracellular region host cell plasma membrane host cellular component host cell part host cell membrane other organism part intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth X]	IPR046673	Dermonecrotic toxin, N-terminal domain	Domain
A [auth X]	IPR054135	Dermonecrotic toxin, barrel-like domain	Domain
A [auth X]	IPR048460	Dermonecrotic toxin, C3 domain	Domain
A [auth X]	IPR038765	Papain-like cysteine peptidase superfamily	Homologous Superfamily
A [auth X]	IPR048461	Dermonecrotic toxin-like, C2 domain	Domain
A [auth X]	IPR020972	Dermonecrotic/RTX toxin, membrane localization domain	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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.