1SMP | pdb_00001smp

CRYSTAL STRUCTURE OF A COMPLEX BETWEEN SERRATIA MARCESCENS METALLO-PROTEASE AND AN INHIBITOR FROM ERWINIA CHRYSANTHEMI

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
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	d1smpa1	All beta proteins	Single-stranded right-handed beta-helix	beta-Roll	Serralysin-like metalloprotease, C-terminal domain	Metalloprotease	(Serratia marcescens ) [TaxId: 615 ],	SCOPe (2.08)
A	d1smpa2	Alpha and beta proteins (a+b)	Zincin-like	Metalloproteases ('zincins'), catalytic domain	Serralysin-like metalloprotease, catalytic (N-terminal) domain	Metalloprotease	(Serratia marcescens ) [TaxId: 615 ],	SCOPe (2.08)
B [auth I]	d1smpi_	All beta proteins	Streptavidin-like	beta-Barrel protease inhibitors	Metalloprotease inhibitor	Metalloprotease inhibitor	(Dickeya chrysanthemi ) [TaxId: 556 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B [auth I]	SCOP2 Family	Metalloprotease inhibitor	8030358	4002603	SCOP2 (2022-06-29)
B [auth I]	SCOP2 Superfamily	beta-Barrel protease inhibitors	8042737	3001476	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	Peptidase_M10_C	e1smpA1	A: beta duplicates or obligate multimers	X: Single-stranded right-handed beta-helix	H: Serralysin-like metalloprotease-C (From Topology)	T: Serralysin-like metalloprotease-C	F: Peptidase_M10_C	ECOD (1.6)
A	Peptidase_M10	e1smpA2	A: mixed a+b and a/b	X: Zincin-like	H: Metalloproteases (zincins) catalytic domain (From Topology)	T: Metalloproteases (zincins) catalytic domain	F: Peptidase_M10	ECOD (1.6)
B [auth I]	Inh	e1smpI1	A: beta barrels	X: Lipocalins/Streptavidin	H: Metalloprotease inhibitor (From Topology)	T: Metalloprotease inhibitor	F: Inh	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.150.10.10	Mainly Beta	2 Solenoid	Alkaline Protease, subunit P, domain 1	Serralysin-like metalloprotease, C-terminal	CATH (4.3.0)
A	3.40.390.10	Alpha Beta	3-Layer(aba) Sandwich	Collagenase (Catalytic Domain)	Collagenase (Catalytic Domain)	CATH (4.3.0)
B [auth I]	2.40.128.10	Mainly Beta	Beta Barrel	Lipocalin		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00413	Matrixin (Peptidase_M10)	Matrixin	The members of this family are enzymes that cleave peptides. These proteases require zinc for catalysis.	Domain
A	PF00353	RTX calcium-binding nonapeptide repeat (4 copies) (HemolysinCabind)	RTX calcium-binding nonapeptide repeat (4 copies)	-	Repeat
A	PF08548	Peptidase M10 serralysin C terminal (Peptidase_M10_C)	Peptidase M10 serralysin C terminal	-	Repeat
B [auth I]	PF02974	Protease inhibitor Inh (Inh)	Protease inhibitor Inh	The Inh inhibitor is secreted into the periplasm where its presumed physiological function is to protect periplasmic proteins against the action of secreted proteases [1]. A range of proteases including A, B and C from E. chrysanthemi, alkaline prote ...	The Inh inhibitor is secreted into the periplasm where its presumed physiological function is to protect periplasmic proteins against the action of secreted proteases [1]. A range of proteases including A, B and C from E. chrysanthemi, alkaline protease from Pseudomonas aeruginosa and the 50 kDa protease from Serratia marcescens are inhibited.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	SERRATIA METALLO PROTEINASE	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding peptidase activity catalytic activity, acting on a protein metalloendopeptidase activity hydrolase activity metallopeptidase activity catalytic activity endopeptidase activity toxin activity cation binding ion binding binding calcium ion binding metal ion binding small molecule binding peptidase activity catalytic activity, acting on a protein metalloendopeptidase activity hydrolase activity metallopeptidase activity catalytic activity endopeptidase activity toxin activity transition metal ion binding zinc ion binding	biological process involved in interspecies interaction between organisms 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 biological process involved in interaction with host biological process involved in symbiotic interaction proteolysis metabolic process primary metabolic process protein metabolic process macromolecule metabolic process	cellular anatomical structure extracellular region cell periphery extracellular matrix external encapsulating structure extracellular space
B [auth I]	ERWINIA CHRYSANTHEMI INHIBITOR	enzyme regulator activity peptidase activity peptidase regulator activity catalytic activity, acting on a protein metalloendopeptidase activity hydrolase activity enzyme inhibitor activity peptidase inhibitor activity endopeptidase regulator activity metalloendopeptidase inhibitor activity endopeptidase inhibitor activity molecular function inhibitor activity molecular function regulator activity metallopeptidase activity catalytic activity enzyme regulator activity peptidase activity peptidase regulator activity catalytic activity, acting on a protein metalloendopeptidase activity hydrolase activity enzyme inhibitor activity peptidase inhibitor activity endopeptidase regulator activity metalloendopeptidase inhibitor activity endopeptidase inhibitor activity molecular function inhibitor activity molecular function regulator activity metallopeptidase activity catalytic activity endopeptidase activity	-	cellular anatomical structure periplasmic space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR006026	Peptidase, metallopeptidase	Domain
A	IPR024079	Metallopeptidase, catalytic domain superfamily	Homologous Superfamily
A	IPR001343	RTX calcium-binding nonapeptide repeat	Repeat
A	IPR016294	Peptidase M10B	Family
A	IPR034033	Serralysin-like metallopeptidase domain	Domain
A	IPR001818	Peptidase M10, metallopeptidase	Domain
A	IPR018511	Hemolysin-type calcium-binding conserved site	Conserved Site
A	IPR013858	Peptidase M10 serralysin, C-terminal	Domain
A	IPR011049	Serralysin-like metalloprotease, C-terminal	Homologous Superfamily
B [auth I]	IPR021140	Alkaline proteinase inhibitor/ Outer membrane lipoprotein Omp19	Domain
B [auth I]	IPR022815	Protease inhibitor	Family
B [auth I]	IPR016085	Protease inhibitor, beta-barrel domain	Homologous Superfamily

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.