7D2N | pdb_00007d2n

Crystal structure of MazE-MazF (Form-III) from Deinococcus radiodurans

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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)
E [auth C]	d7d2nc_	All beta proteins	SH3-like barrel	Cell growth inhibitor/plasmid maintenance toxic component	automated matches	automated matches	(Deinococcus radiodurans ) [TaxId: 1299 ],	SCOPe (2.08)
D [auth B]	d7d2nb_	All beta proteins	SH3-like barrel	Cell growth inhibitor/plasmid maintenance toxic component	automated matches	automated matches	(Deinococcus radiodurans ) [TaxId: 1299 ],	SCOPe (2.08)
B [auth D]	d7d2nd_	All beta proteins	SH3-like barrel	Cell growth inhibitor/plasmid maintenance toxic component	automated matches	automated matches	(Deinococcus radiodurans ) [TaxId: 1299 ],	SCOPe (2.08)
A	d7d2na_	All beta proteins	SH3-like barrel	Cell growth inhibitor/plasmid maintenance toxic component	automated matches	automated matches	(Deinococcus radiodurans ) [TaxId: 1299 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
E [auth C]	SCOP2B Superfamily	Cell growth inhibitor/plasmid maintenance toxic component	8103514	3000352	SCOP2B (2022-06-29)
D [auth B]	SCOP2B Superfamily	Cell growth inhibitor/plasmid maintenance toxic component	8103514	3000352	SCOP2B (2022-06-29)
B [auth D]	SCOP2B Superfamily	Cell growth inhibitor/plasmid maintenance toxic component	8103514	3000352	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Cell growth inhibitor/plasmid maintenance toxic component	8103514	3000352	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)
C [auth E]	dCMP_cyt_deam_1	e7d2nE01	A: a/b three-layered sandwiches	X: Rossmann-like	H: all-alpha NTP pyrophosphatases	T: Hypothetical protein AF_0060	F: dCMP_cyt_deam_1	ECOD (v294.1)
E [auth C]	V-set	e7d2nC1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (v294.1)
D [auth B]	V-set	e7d2nB1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (v294.1)
B [auth D]	V-set	e7d2nD1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (v294.1)
A	V-set	e7d2nA1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B [auth D], D [auth B], E [auth C]	PF02452	PemK-like, MazF-like toxin of type II toxin-antitoxin system (PemK_toxin)	PemK-like, MazF-like toxin of type II toxin-antitoxin system	PemK is a growth inhibitor in E. coli known to bind to the promoter region of the Pem operon, auto-regulating synthesis. This family represents the toxin molecule of a typical bacterial toxin-antitoxin system pairing. The family includes a number of ...	PemK is a growth inhibitor in E. coli known to bind to the promoter region of the Pem operon, auto-regulating synthesis. This family represents the toxin molecule of a typical bacterial toxin-antitoxin system pairing. The family includes a number of different toxins, such as MazF, Kid, PemK, ChpA, ChpB and ChpAK.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C [auth E], F	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	DNA binding binding nucleic acid binding molecular sequestering activity toxin sequestering activity	regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process cellular process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process	protein-containing complex transcription regulator complex toxin-antitoxin complex transcription repressor complex
A, B [auth D], D [auth B], E [auth C]	Endoribonuclease MazF	DNA binding binding nucleic acid binding endonuclease activity nuclease activity catalytic activity, acting on RNA RNA endonuclease activity catalytic activity, acting on a nucleic acid RNA nuclease activity catalytic activity	catabolic process RNA metabolic process primary metabolic process rRNA catabolic process nucleic acid metabolic process macromolecule catabolic process nucleobase-containing compound catabolic process nucleobase-containing compound metabolic process nucleic acid catabolic process metabolic process cellular process macromolecule metabolic process rRNA metabolic process RNA catabolic process catabolic process RNA metabolic process primary metabolic process rRNA catabolic process nucleic acid metabolic process macromolecule catabolic process nucleobase-containing compound catabolic process nucleobase-containing compound metabolic process nucleic acid catabolic process metabolic process cellular process macromolecule metabolic process rRNA metabolic process RNA catabolic process regulation of cellular process negative regulation of biological process negative regulation of cellular process negative regulation of macromolecule metabolic process regulation of biosynthetic process mRNA catabolic process regulation of biological process negative regulation of metabolic process biological regulation regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process mRNA metabolic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process regulation of metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth E], F	IPR039052	Antitoxin PemI-like	Family
C [auth E], F	IPR037914	SpoVT-AbrB domain superfamily	Homologous Superfamily
C [auth E], F	IPR007159	SpoVT-AbrB domain	Domain
A, B [auth D], D [auth B], E [auth C]	IPR011067	Plasmid maintenance toxin/Cell growth inhibitor	Homologous Superfamily
A, B [auth D], D [auth B], E [auth C]	IPR003477	mRNA interferase PemK-like	Family

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.