8A64 | pdb_00008a64

cryoEM structure of the catalytically inactive EndoS from S. pyogenes in complex with the Fc region of immunoglobulin G1.

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)
C	F_UNCLASSIFIED	e8a64C1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: F_UNCLASSIFIED	ECOD (1.6)
B	F_UNCLASSIFIED	e8a64B1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: F_UNCLASSIFIED	ECOD (1.6)
A	F_UNCLASSIFIED	e8a64A3	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: F_UNCLASSIFIED	ECOD (1.6)
A	F_UNCLASSIFIED	e8a64A4	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Ig-like domain in endo-beta-N-acetylglucosaminidase F2 (From Topology)	T: Ig-like domain in endo-beta-N-acetylglucosaminidase F2	F: F_UNCLASSIFIED	ECOD (1.6)
A	F_UNCLASSIFIED	e8a64A5	A: beta duplicates or obligate multimers	X: Single-stranded right-handed beta-helix	H: Leucine-rich repeats (From Topology)	T: Leucine-rich repeats	F: F_UNCLASSIFIED	ECOD (1.6)
A	F_UNCLASSIFIED	e8a64A1	A: alpha bundles	X: immunoglobulin/albumin-binding domain-like	H: Helical bundle domain in endo-beta-N-acetylglucosaminidase F2 (From Topology)	T: Helical bundle domain in endo-beta-N-acetylglucosaminidase F2	F: F_UNCLASSIFIED	ECOD (1.6)
A	F_UNCLASSIFIED	e8a64A2	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: F_UNCLASSIFIED	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, C	PF07654	Immunoglobulin C1-set domain (C1-set)	Immunoglobulin C1-set domain		Domain
A	PF20746	Endo-beta-N-acetylglucosaminidase F2, Ig-like domain (EndoS_Ig-like)	Endo-beta-N-acetylglucosaminidase F2, Ig-like domain	This domain is found in Endo-beta-N-acetylglucosaminidase F2 (EndoS) from Streptococcus pyogenes (Swiss:Q48RM3) and similar sequences predominantly found in Firmicutes. EndoS is an immunomodulatory enzyme secreted by the bacteria to remove carbohydra ...	This domain is found in Endo-beta-N-acetylglucosaminidase F2 (EndoS) from Streptococcus pyogenes (Swiss:Q48RM3) and similar sequences predominantly found in Firmicutes. EndoS is an immunomodulatory enzyme secreted by the bacteria to remove carbohydrates from IgG antibodies in a highly specific manner, which gives the pathogen a survival advantage over its host. This protein is composed of five distinct protein domains. The domain located at the base of the V-shaped EndoS structure (this entry), also named hybrid Ig domain, is composed of two subdomains. The smaller one is inserted within the loop that connects the LRR domain to the second and third beta strands of the larger subdomain. The latter is a typical Ig domain structurally similar to the interleukin-4 receptor [1,2,3].	Domain
A	PF22382	Endo-beta-N-acetylglucosaminidase, helical bundle (EndoS_helical)	Endo-beta-N-acetylglucosaminidase, helical bundle	This entry represents a three-helix bundle domain of EndoS from Streptococcus pyogenes and similar bacterial proteins. EndoS is involved in immune evasion mechanisms and possesses a specific endoglycosidase activity that targets IgG antibodies [1,2]. ...	This entry represents a three-helix bundle domain of EndoS from Streptococcus pyogenes and similar bacterial proteins. EndoS is involved in immune evasion mechanisms and possesses a specific endoglycosidase activity that targets IgG antibodies [1,2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, C	Immunoglobulin gamma-1 heavy chain	-	response to stimulus immune response immune system process adaptive immune response	cell periphery cellular anatomical structure plasma membrane membrane protein-containing complex immunoglobulin complex extracellular region
A	Endo-beta-N-acetylglucosaminidase F2	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding toxin activity mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase activity hydrolase activity, acting on glycosyl bonds hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity catalytic activity	symbiont-mediated perturbation of host defense response biological process involved in interspecies interaction between organisms response to stimulus response to other organism symbiont-mediated perturbation of host immune response symbiont-mediated response to host defenses response to external stimulus biological process involved in interaction with host response to biotic stimulus biological process involved in symbiotic interaction symbiont-mediated perturbation of host process response to host immune response symbiont-mediated evasion of host immune response response to host symbiont-mediated perturbation of host defense response biological process involved in interspecies interaction between organisms response to stimulus response to other organism symbiont-mediated perturbation of host immune response symbiont-mediated response to host defenses response to external stimulus biological process involved in interaction with host response to biotic stimulus biological process involved in symbiotic interaction symbiont-mediated perturbation of host process response to host immune response symbiont-mediated evasion of host immune response response to host response to external biotic stimulus modulation of process of another organism carbohydrate metabolic process primary metabolic process metabolic process cellular process	cellular anatomical structure extracellular region host extracellular space host cellular component other organism part

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, C	IPR003597	Immunoglobulin C1-set	Domain
B, C	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
B, C	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
B, C	IPR013106	Immunoglobulin V-set domain	Domain
B, C	IPR003599	Immunoglobulin domain subtype	Domain
B, C	IPR007110	Immunoglobulin-like domain	Domain
B, C	IPR050380	Immune Recognition and Response Modulators	Family
B, C	IPR003006	Immunoglobulin/major histocompatibility complex, conserved site	Conserved Site
A	IPR057016	Endo-beta-N-acetylglucosaminidase EndoS/F2-like, TIM-barrel domain	Domain
A	IPR001579	Glycosyl hydrolase family 18, active site	Active Site
A	IPR017853	Glycoside hydrolase superfamily	Homologous Superfamily
A	IPR032675	Leucine-rich repeat domain superfamily	Homologous Superfamily
A	IPR049410	Endo-beta-N-acetylglucosaminidase EndoS-like, Ig-like domain	Domain
A	IPR055024	Endo-beta-N-acetylglucosaminidase EndoS, helical bundle	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.