2O3B | pdb_00002o3b

Crystal structure complex of Nuclease A (NucA) with intra-cellular inhibitor NuiA

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	d2o3ba1	Alpha and beta proteins (a+b)	His-Me finger endonucleases	His-Me finger endonucleases	DNA/RNA non-specific endonuclease	Nuclease NucA	(Nostoc sp. PCC 7120 = FACHB-418 ) [TaxId: 103690 ],	SCOPe (2.08)
A	d2o3ba2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Nostoc sp. PCC 7120 = FACHB-418 ) [TaxId: 103690 ],	SCOPe (2.08)
B	d2o3bb2	Alpha and beta proteins (a+b)	Nuclease A inhibitor (NuiA)	Nuclease A inhibitor (NuiA)	Nuclease A inhibitor (NuiA)	automated matches	(Nostoc sp. PCC 7120 = FACHB-418 ) [TaxId: 103690 ],	SCOPe (2.08)
B	d2o3bb3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Nostoc sp. PCC 7120 = FACHB-418 ) [TaxId: 103690 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	DNA/RNA non-specific endonuclease	8020904	4000890	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	His-Me finger endonucleases	8033284	3001893	SCOP2 (2022-06-29)
B	SCOP2 Family	Nuclease A inhibitor (NuiA)	8031005	4003180	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Nuclease A inhibitor (NuiA)	8043383	3000380	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	Endonuclease_NS	e2o3bA1	A: few secondary structure elements	X: His-Me finger endonucleases (From Homology)	H: His-Me finger endonucleases	T: His-Me finger endonucleases	F: Endonuclease_NS	ECOD (1.6)
B	NuiA	e2o3bB1	A: a+b two layers	X: Cystatin-like	H: Nuclease A inhibitor (NuiA)-related (From Topology)	T: Nuclease A inhibitor (NuiA)-related	F: NuiA	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.570.10	Alpha Beta	3-Layer(aba) Sandwich	Extracellular Endonuclease	Chain A	CATH (4.3.0)
B	3.40.1460.10	Alpha Beta	3-Layer(aba) Sandwich	Nuia	Nuclease A inhibitor-like	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01223	DNA/RNA non-specific endonuclease (Endonuclease_NS)	DNA/RNA non-specific endonuclease		Domain
B	PF07924	Nuclease A inhibitor-like protein (NuiA)	Nuclease A inhibitor-like protein	This family represents the nuclease A inhibitor NuiA expressed by Anabaena sp (Swiss:Q44296) and similar bacterial proteins. This protein adopts an alpha+beta fold described as an 'open jaw', which shares some similarity to the PR-1-like fold [1]. Nu ...	This family represents the nuclease A inhibitor NuiA expressed by Anabaena sp (Swiss:Q44296) and similar bacterial proteins. This protein adopts an alpha+beta fold described as an 'open jaw', which shares some similarity to the PR-1-like fold [1]. NuiA regulates the activity of Nuclease A (NucA). The NucA inhibition by NuiA involves an unusual divalent metal ion bridge that connects the nuclease with its inhibitor. A highly conserved glutamate extends into the active site, mimicking the charge of a phosphate. In addition, a second interaction site located on one of the two 'jaws' of the NuiA structure, contribute to the specificity and strength of the NuiA-NucA interaction [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Nuclease	binding nucleic acid binding endonuclease activity nuclease activity hydrolase activity, acting on ester bonds hydrolase activity catalytic activity cation binding ion binding metal ion binding small molecule binding	-	cellular anatomical structure periplasmic space
B	Sugar-non-specific nuclease inhibitor	cation binding ion binding binding metal ion binding small molecule binding	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR020821	ENPP1-3/EXOG-like, endonuclease/phosphodiesterase domain	Domain
A	IPR018524	DNA/RNA non-specific endonuclease, active site	Active Site
A	IPR044929	DNA/RNA non-specific endonuclease superfamily	Homologous Superfamily
A	IPR044925	His-Me finger superfamily	Homologous Superfamily
A	IPR040255	Non-specific endonuclease	Family
A	IPR001604	DNA/RNA non-specific endonuclease/pyrophosphatase/phosphodiesterase domain	Domain
B	IPR012489	Nuclease A inhibitor-like	Family
B	IPR036587	Nuclease A inhibitor-like superfamily	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.