4NPA

Scrystal structure of protein with unknown function from Vibrio cholerae at P22121 spacegroup

External Resource: Annotation

Domain Annotation: SCOP/SCOPe 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	d4npaa2	Alpha and beta proteins (a/b)	MCP/YpsA-like	MCP/YpsA-like	MoCo carrier protein-like	Nucleosidase PpnN	(Vibrio cholerae O1 biovar El Tor str. N16961 ) [TaxId: 243277 ],	SCOPe (2.08)
A	d4npaa1	Alpha and beta proteins (a+b)	Ferredoxin-like	DUF4478 domain-like	DUF4478 domain	Nucleosidase PpnN	(Vibrio cholerae O1 biovar El Tor str. N16961 ) [TaxId: 243277 ],	SCOPe (2.08)
A	d4npaa3	Membrane and cell surface proteins and peptides	Anoctamin (TMEM16)-like	DUF3412 domain	DUF3412 domain	Nucleosidase PpnN	(Vibrio cholerae O1 biovar El Tor str. N16961 ) [TaxId: 243277 ],	SCOPe (2.08)
A	d4npaa4	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Vibrio cholerae O1 biovar El Tor str. N16961 ) [TaxId: 243277 ],	SCOPe (2.08)
B	d4npab2	Alpha and beta proteins (a/b)	MCP/YpsA-like	MCP/YpsA-like	MoCo carrier protein-like	Nucleosidase PpnN	(Vibrio cholerae O1 biovar El Tor str. N16961 ) [TaxId: 243277 ],	SCOPe (2.08)
B	d4npab1	Alpha and beta proteins (a+b)	Ferredoxin-like	DUF4478 domain-like	DUF4478 domain	Nucleosidase PpnN	(Vibrio cholerae O1 biovar El Tor str. N16961 ) [TaxId: 243277 ],	SCOPe (2.08)
B	d4npab3	Membrane and cell surface proteins and peptides	Anoctamin (TMEM16)-like	DUF3412 domain	DUF3412 domain	Nucleosidase PpnN	(Vibrio cholerae O1 biovar El Tor str. N16961 ) [TaxId: 243277 ],	SCOPe (2.08)
B	d4npab4	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Vibrio cholerae O1 biovar El Tor str. N16961 ) [TaxId: 243277 ],	SCOPe (2.08)
C	d4npac2	Alpha and beta proteins (a/b)	MCP/YpsA-like	MCP/YpsA-like	MoCo carrier protein-like	Nucleosidase PpnN	(Vibrio cholerae O1 biovar El Tor str. N16961 ) [TaxId: 243277 ],	SCOPe (2.08)
C	d4npac1	Alpha and beta proteins (a+b)	Ferredoxin-like	DUF4478 domain-like	DUF4478 domain	Nucleosidase PpnN	(Vibrio cholerae O1 biovar El Tor str. N16961 ) [TaxId: 243277 ],	SCOPe (2.08)
C	d4npac3	Membrane and cell surface proteins and peptides	Anoctamin (TMEM16)-like	DUF3412 domain	DUF3412 domain	Nucleosidase PpnN	(Vibrio cholerae O1 biovar El Tor str. N16961 ) [TaxId: 243277 ],	SCOPe (2.08)
C	d4npac4	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Vibrio cholerae O1 biovar El Tor str. N16961 ) [TaxId: 243277 ],	SCOPe (2.08)
D	d4npad2	Alpha and beta proteins (a/b)	MCP/YpsA-like	MCP/YpsA-like	MoCo carrier protein-like	Nucleosidase PpnN	(Vibrio cholerae O1 biovar El Tor str. N16961 ) [TaxId: 243277 ],	SCOPe (2.08)
D	d4npad1	Alpha and beta proteins (a+b)	Ferredoxin-like	DUF4478 domain-like	DUF4478 domain	Nucleosidase PpnN	(Vibrio cholerae O1 biovar El Tor str. N16961 ) [TaxId: 243277 ],	SCOPe (2.08)
D	d4npad3	Membrane and cell surface proteins and peptides	Anoctamin (TMEM16)-like	DUF3412 domain	DUF3412 domain	Nucleosidase PpnN	(Vibrio cholerae O1 biovar El Tor str. N16961 ) [TaxId: 243277 ],	SCOPe (2.08)
D	d4npad4	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Vibrio cholerae O1 biovar El Tor str. N16961 ) [TaxId: 243277 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	DUF4478	e4npaA2	A: a+b two layers	X: Uncharacterized protein VC_0899 (From Topology)	H: Uncharacterized protein VC_0899 (From Topology)	T: Uncharacterized protein VC_0899	F: DUF4478	ECOD (1.6)
A	Lysine_decarbox	e4npaA1	A: a/b three-layered sandwiches	X: MCP/YpsA-related (From Topology)	H: MCP/YpsA-related (From Topology)	T: MCP/YpsA-related	F: Lysine_decarbox	ECOD (1.6)
B	DUF4478	e4npaB1	A: a+b two layers	X: Uncharacterized protein VC_0899 (From Topology)	H: Uncharacterized protein VC_0899 (From Topology)	T: Uncharacterized protein VC_0899	F: DUF4478	ECOD (1.6)
B	Lysine_decarbox	e4npaB2	A: a/b three-layered sandwiches	X: MCP/YpsA-related (From Topology)	H: MCP/YpsA-related (From Topology)	T: MCP/YpsA-related	F: Lysine_decarbox	ECOD (1.6)
C	DUF4478	e4npaC2	A: a+b two layers	X: Uncharacterized protein VC_0899 (From Topology)	H: Uncharacterized protein VC_0899 (From Topology)	T: Uncharacterized protein VC_0899	F: DUF4478	ECOD (1.6)
C	Lysine_decarbox	e4npaC1	A: a/b three-layered sandwiches	X: MCP/YpsA-related (From Topology)	H: MCP/YpsA-related (From Topology)	T: MCP/YpsA-related	F: Lysine_decarbox	ECOD (1.6)
D	DUF4478	e4npaD3	A: a+b two layers	X: Uncharacterized protein VC_0899 (From Topology)	H: Uncharacterized protein VC_0899 (From Topology)	T: Uncharacterized protein VC_0899	F: DUF4478	ECOD (1.6)
D	Lysine_decarbox	e4npaD4	A: a/b three-layered sandwiches	X: MCP/YpsA-related (From Topology)	H: MCP/YpsA-related (From Topology)	T: MCP/YpsA-related	F: Lysine_decarbox	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.1850.10	Alpha Beta	2-Layer Sandwich	MCP/YpsA-like	MoCo carrier protein-like	CATH (4.3.0)
A	3.40.50.450	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
B	3.30.1850.10	Alpha Beta	2-Layer Sandwich	MCP/YpsA-like	MoCo carrier protein-like	CATH (4.3.0)
B	3.40.50.450	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
C	3.30.1850.10	Alpha Beta	2-Layer Sandwich	MCP/YpsA-like	MoCo carrier protein-like	CATH (4.3.0)
C	3.40.50.450	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
D	3.30.1850.10	Alpha Beta	2-Layer Sandwich	MCP/YpsA-like	MoCo carrier protein-like	CATH (4.3.0)
D	3.40.50.450	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF11892	Pyrimidine/purine nucleotide monophosphate nucleosidase, C-terminal (PpnN_C)	Pyrimidine/purine nucleotide monophosphate nucleosidase, C-terminal	-	Family
A, B, C, D	PF14793	Pyrimidine/purine nucleotide 5'-monophosphate nucleosidases (DUF4478)	Pyrimidine/purine nucleotide 5'-monophosphate nucleosidases	This is an N-terminal domain found in pyrimidine/purine nucleotide 5'-monophosphate nucleosidases (PpnN) in bacteria. PpnN catalyzes the hydrolysis of the N-glycosidic bond of diverse pyrimidine and purine nucleotide 5'-monophosphates, to form ribose ...	This is an N-terminal domain found in pyrimidine/purine nucleotide 5'-monophosphate nucleosidases (PpnN) in bacteria. PpnN catalyzes the hydrolysis of the N-glycosidic bond of diverse pyrimidine and purine nucleotide 5'-monophosphates, to form ribose 5-phosphate and the corresponding free base. It can use AMP, GMP, IMP, CMP, dTMP and UMP as substrates [1]. It is found in association with Pfam:PF03641 and Pfam:PF11892.	Domain
A, B, C, D	PF03641	Possible lysine decarboxylase (Lysine_decarbox)	Possible lysine decarboxylase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Putative uncharacterized protein	hydrolase activity, acting on glycosyl bonds AMP nucleosidase activity hydrolase activity hydrolase activity, hydrolyzing N-glycosyl compounds catalytic activity	-	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR037153	Pyrimidine/purine nucleotide 5'-monophosphate nucleosidase PpnN-like superfamily	Homologous Superfamily
A, B, C, D	IPR049788	Nucleotide 5'-monophosphate nucleosidase PpnN	Family
A, B, C, D	IPR031100	LOG family	Family
A, B, C, D	IPR052341	LOG family pyrimidine/purine nucleotide 5'-monophosphatases	Family
A, B, C, D	IPR021826	Pyrimidine/purine nucleotide 5'-monophosphate nucleosidase, C-terminal domain	Domain
A, B, C, D	IPR027820	Pyrimidine/purine nucleotide 5'-monophosphate nucleosidase, N-terminal	Domain

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.