4A8B

Symmetrized cryo-EM reconstruction of E. coli DegQ 12-mer in complex with lysozymes

External Resource: Annotation

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Trypsin-like serine proteases	8073980	3000114	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Trypsin-like serine proteases	8073980	3000114	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Trypsin-like serine proteases	8073980	3000114	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Trypsin-like serine proteases	8073980	3000114	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Trypsin-like serine proteases	8073980	3000114	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Trypsin-like serine proteases	8073980	3000114	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Trypsin-like serine proteases	8073980	3000114	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Trypsin-like serine proteases	8073980	3000114	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Trypsin-like serine proteases	8073980	3000114	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Trypsin-like serine proteases	8073980	3000114	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	Trypsin-like serine proteases	8073980	3000114	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	Trypsin-like serine proteases	8073980	3000114	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	Lysozyme-like	8037428	3001879	SCOP2B (2022-06-29)
N	SCOP2B Superfamily	Lysozyme-like	8037428	3001879	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	Lysozyme-like	8037428	3001879	SCOP2B (2022-06-29)
P	SCOP2B Superfamily	Lysozyme-like	8037428	3001879	SCOP2B (2022-06-29)
Q	SCOP2B Superfamily	Lysozyme-like	8037428	3001879	SCOP2B (2022-06-29)
R	SCOP2B Superfamily	Lysozyme-like	8037428	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)
A	Trypsin_2	e4a8bA3	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Trypsin_2	ECOD (1.6)
A	PDZ_2	e4a8bA4	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2	ECOD (1.6)
A	PDZ_2,Trypsin_2	e4a8bA2	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2,Trypsin_2	ECOD (1.6)
B	Trypsin_2	e4a8bB3	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Trypsin_2	ECOD (1.6)
B	PDZ_2	e4a8bB4	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2	ECOD (1.6)
B	PDZ_2,Trypsin_2	e4a8bB2	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2,Trypsin_2	ECOD (1.6)
C	Trypsin_2	e4a8bC3	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Trypsin_2	ECOD (1.6)
C	PDZ_2	e4a8bC4	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2	ECOD (1.6)
C	PDZ_2,Trypsin_2	e4a8bC2	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2,Trypsin_2	ECOD (1.6)
D	Trypsin_2	e4a8bD3	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Trypsin_2	ECOD (1.6)
D	PDZ_2	e4a8bD4	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2	ECOD (1.6)
D	PDZ_2,Trypsin_2	e4a8bD2	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2,Trypsin_2	ECOD (1.6)
E	Trypsin_2	e4a8bE3	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Trypsin_2	ECOD (1.6)
E	PDZ_2	e4a8bE4	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2	ECOD (1.6)
E	PDZ_2,Trypsin_2	e4a8bE2	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2,Trypsin_2	ECOD (1.6)
F	Trypsin_2	e4a8bF3	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Trypsin_2	ECOD (1.6)
F	PDZ_2	e4a8bF4	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2	ECOD (1.6)
F	PDZ_2,Trypsin_2	e4a8bF2	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2,Trypsin_2	ECOD (1.6)
G	Trypsin_2	e4a8bG3	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Trypsin_2	ECOD (1.6)
G	PDZ_2	e4a8bG4	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2	ECOD (1.6)
G	PDZ_2,Trypsin_2	e4a8bG2	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2,Trypsin_2	ECOD (1.6)
H	Trypsin_2	e4a8bH3	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Trypsin_2	ECOD (1.6)
H	PDZ_2	e4a8bH4	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2	ECOD (1.6)
H	PDZ_2,Trypsin_2	e4a8bH2	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2,Trypsin_2	ECOD (1.6)
I	Trypsin_2	e4a8bI3	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Trypsin_2	ECOD (1.6)
I	PDZ_2	e4a8bI4	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2	ECOD (1.6)
I	PDZ_2,Trypsin_2	e4a8bI2	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2,Trypsin_2	ECOD (1.6)
J	Trypsin_2	e4a8bJ3	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Trypsin_2	ECOD (1.6)
J	PDZ_2	e4a8bJ4	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2	ECOD (1.6)
J	PDZ_2,Trypsin_2	e4a8bJ2	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2,Trypsin_2	ECOD (1.6)
K	Trypsin_2	e4a8bK3	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Trypsin_2	ECOD (1.6)
K	PDZ_2	e4a8bK4	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2	ECOD (1.6)
K	PDZ_2,Trypsin_2	e4a8bK2	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2,Trypsin_2	ECOD (1.6)
L	Trypsin_2	e4a8bL3	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: FMN-binding split barrel 2	F: Trypsin_2	ECOD (1.6)
L	PDZ_2	e4a8bL4	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2	ECOD (1.6)
L	PDZ_2,Trypsin_2	e4a8bL2	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ_2,Trypsin_2	ECOD (1.6)
M	Lys	e4a8bM1	A: a+b complex topology	X: Lysozyme-like (From Homology)	H: Lysozyme-like	T: Lysozyme-like	F: Lys	ECOD (1.6)
N	Lys	e4a8bN1	A: a+b complex topology	X: Lysozyme-like (From Homology)	H: Lysozyme-like	T: Lysozyme-like	F: Lys	ECOD (1.6)
O	Lys	e4a8bO1	A: a+b complex topology	X: Lysozyme-like (From Homology)	H: Lysozyme-like	T: Lysozyme-like	F: Lys	ECOD (1.6)
P	Lys	e4a8bP1	A: a+b complex topology	X: Lysozyme-like (From Homology)	H: Lysozyme-like	T: Lysozyme-like	F: Lys	ECOD (1.6)
Q	Lys	e4a8bQ1	A: a+b complex topology	X: Lysozyme-like (From Homology)	H: Lysozyme-like	T: Lysozyme-like	F: Lys	ECOD (1.6)
R	Lys	e4a8bR1	A: a+b complex topology	X: Lysozyme-like (From Homology)	H: Lysozyme-like	T: Lysozyme-like	F: Lys	ECOD (1.6)

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, J, K, L	PF13365	Trypsin-like peptidase domain (Trypsin_2)	Trypsin-like peptidase domain	This family includes trypsin-like peptidase domains.	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	PF00595	PDZ domain (PDZ)	PDZ domain	PDZ domains are found in diverse signaling proteins.	Domain
M, N, O, P, Q M, N, O, P, Q, R	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, J, K, L	PERIPLASMIC PH-DEPENDENT SERINE ENDOPROTEASE DEGQ	peptidase activity catalytic activity, acting on a protein serine hydrolase activity serine-type peptidase activity hydrolase activity serine-type endopeptidase activity catalytic activity endopeptidase activity identical protein binding protein binding binding	organonitrogen compound catabolic process organonitrogen compound metabolic process catabolic process proteolysis involved in protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process proteolysis metabolic process protein metabolic process macromolecule metabolic process protein quality control for misfolded or incompletely synthesized proteins	periplasmic space cellular anatomical entity
M, N, O, P, Q M, N, O, P, Q, R	LYSOZYME C	hydrolase activity, acting on glycosyl bonds hexosaminidase activity beta-N-acetylhexosaminidase activity beta-N-acetylglucosaminidase activity hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity catalytic activity peptidoglycan muralytic activity lysozyme activity identical protein binding protein binding binding	catabolic process cell wall organization or biogenesis metabolic process cellular process macromolecule metabolic process macromolecule catabolic process cell wall macromolecule catabolic process cell wall macromolecule metabolic process biological process involved in interspecies interaction between organisms disruption of cell in another organism disruption of anatomical structure in another organism killing of cells of another organism cell killing response to stimulus catabolic process cell wall organization or biogenesis metabolic process cellular process macromolecule metabolic process macromolecule catabolic process cell wall macromolecule catabolic process cell wall macromolecule metabolic process biological process involved in interspecies interaction between organisms disruption of cell in another organism disruption of anatomical structure in another organism killing of cells of another organism cell killing response to stimulus response to other organism defense response response to external stimulus defense response to Gram-negative bacterium response to biotic stimulus defense response to bacterium defense response to other organism response to stress response to bacterium response to external biotic stimulus defense response to Gram-positive bacterium	intracellular anatomical structure cytoplasm cellular anatomical entity extracellular region extracellular space membrane-bounded organelle intracellular organelle organelle endoplasmic reticulum intracellular membrane-bounded organelle endomembrane system

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, J, K, L	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR011782	Peptidase S1C, Do	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR001478	PDZ domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR001940	Peptidase S1C	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR036034	PDZ superfamily	Homologous Superfamily
M, N, O, P, Q M, N, O, P, Q, R	IPR001916	Glycoside hydrolase, family 22	Family
M, N, O, P, Q M, N, O, P, Q, R	IPR023346	Lysozyme-like domain superfamily	Homologous Superfamily
M, N, O, P, Q M, N, O, P, Q, R	IPR019799	Glycoside hydrolase family 22 domain	Domain
M, N, O, P, Q M, N, O, P, Q, R	IPR000974	Glycoside hydrolase, family 22, lysozyme	Family