Annotations: 8R4A

Cryo-EM structure of the D87G lysozyme amyloid fibril

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
I	SCOP2B Superfamily	Lysozyme-like	8043304	3001879	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Lysozyme-like	8043304	3001879	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Lysozyme-like	8043304	3001879	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Lysozyme-like	8043304	3001879	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Lysozyme-like	8043304	3001879	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Lysozyme-like	8043304	3001879	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Lysozyme-like	8043304	3001879	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Lysozyme-like	8043304	3001879	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Lysozyme-like	8043304	3001879	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
I	WD40	e8r4aI1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
H	WD40	e8r4aH1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
G	WD40	e8r4aG1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
F	WD40	e8r4aF1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
E	WD40	e8r4aE1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
D	WD40	e8r4aD1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
C	WD40	e8r4aC1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
B	WD40	e8r4aB1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
A	LRR_4,LRR_6	e8r4aA01	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: LRR_4,LRR_6	ECOD (v294.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H, I	PF00062	C-type lysozyme/alpha-lactalbumin family (Lys)	C-type lysozyme/alpha-lactalbumin family	Alpha-lactalbumin is the regulatory subunit of lactose synthase, changing the substrate specificity of galactosyltransferase from N-acetylglucosamine to glucose. C-type lysozymes are secreted bacteriolytic enzymes that cleave the peptidoglycan of bac ...	Alpha-lactalbumin is the regulatory subunit of lactose synthase, changing the substrate specificity of galactosyltransferase from N-acetylglucosamine to glucose. C-type lysozymes are secreted bacteriolytic enzymes that cleave the peptidoglycan of bacterial cell walls. Structure is a multi-domain, mixed alpha and beta fold, containing four conserved disulfide bonds.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G, H, I	Lysozyme C	hydrolase activity, acting on glycosyl bonds peptidoglycan muralytic activity hydrolase activity, hydrolyzing O-glycosyl compounds lysozyme activity hydrolase activity catalytic activity identical protein binding protein binding binding	humoral immune response biological process involved in interspecies interaction between organisms response to stimulus response to other organism defense response immune response defense response to symbiont response to external stimulus antimicrobial humoral response response to biotic stimulus defense response to other organism response to stress immune system process response to external biotic stimulus humoral immune response biological process involved in interspecies interaction between organisms response to stimulus response to other organism defense response immune response defense response to symbiont response to external stimulus antimicrobial humoral response response to biotic stimulus defense response to other organism response to stress immune system process response to external biotic stimulus cellular process disruption of cell in another organism disruption of anatomical structure in another organism killing of cells of another organism cell killing defense response to Gram-negative bacterium defense response to bacterium response to bacterium inflammatory response defense response to Gram-positive bacterium	membrane-bounded organelle intracellular anatomical structure tertiary granule lumen membrane-enclosed lumen intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen tertiary granule intracellular organelle cellular anatomical structure organelle lumen cytoplasmic vesicle organelle membrane-bounded organelle intracellular anatomical structure tertiary granule lumen membrane-enclosed lumen intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen tertiary granule intracellular organelle cellular anatomical structure organelle lumen cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm vesicle Golgi apparatus extracellular region extracellular exosome extracellular vesicle extracellular organelle extracellular membrane-bounded organelle vesicle lumen cytoplasmic vesicle lumen secretory granule lumen specific granule lumen specific granule lytic vacuole vacuolar lumen lysosome azurophil granule vacuole azurophil granule lumen primary lysosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR001916	Glycoside hydrolase, family 22	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR023346	Lysozyme-like domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR019799	Glycoside hydrolase family 22 domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I	IPR000974	Glycoside hydrolase, family 22, lysozyme	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D, E A, B, C, D, E, F, G, H, I	: P61626	familial visceral amyloidosis amyloidosis Hereditary lysozyme Amyloidosis juvenile dermatomyositis lung cancer malignant ependymoma acquired metabolic disease medulloblastoma atypical teratoid rhabdoid tumor osteosarcoma Becker muscular dystrophy pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia chronic kidney disease primitive neuroectodermal tumor dermatomyositis familial visceral amyloidosis amyloidosis Hereditary lysozyme Amyloidosis juvenile dermatomyositis lung cancer malignant ependymoma acquired metabolic disease medulloblastoma atypical teratoid rhabdoid tumor osteosarcoma Becker muscular dystrophy pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia chronic kidney disease primitive neuroectodermal tumor dermatomyositis Sjogren syndrome ductal breast carcinoma in situ interstitial cystitis limb-girdle muscular dystrophy lung carcinoma malignant glioma nephrosclerosis B-cell chronic lymphocytic leukemia ovarian cancer breast cancer periodic fever syndrome Crohn disease psoriasis diabetes mellitus tuberculosis Emery-Dreifuss muscular dystrophy glioblastoma invasive ductal breast carcinoma lung adenocarcinoma lymphoplasmacytic lymphoma malignant pancreatic neoplasm attention deficit hyperactivity disorder, inattentive type non-small cell lung carcinoma Barrett esophagus pancreatic intraductal papillary-mucinous carcinoma breast carcinoma pilocytic astrocytoma cutaneous lupus erythematosus sinusitis Duchenne muscular dystrophy ulcerative colitis esophageal adenocarcinoma

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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.