4YP5 | pdb_00004yp5

Crystal structure of Methanobacterium thermoautotrophicum NMNAT in complex with NADP

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)
C	d4yp5c1	Alpha and beta proteins (a/b)	Adenine nucleotide alpha hydrolase-like	Nucleotidylyl transferase	Adenylyltransferase	Nicotinamide mononucleotide (NMN) adenylyltransferase	(Methanothermobacter thermautotrophicus str. Delta H ) [TaxId: 187420 ],	SCOPe (2.08)
C	d4yp5c2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Methanothermobacter thermautotrophicus str. Delta H ) [TaxId: 187420 ],	SCOPe (2.08)
B	d4yp5b1	Alpha and beta proteins (a/b)	Adenine nucleotide alpha hydrolase-like	Nucleotidylyl transferase	Adenylyltransferase	Nicotinamide mononucleotide (NMN) adenylyltransferase	(Methanothermobacter thermautotrophicus str. Delta H ) [TaxId: 187420 ],	SCOPe (2.08)
B	d4yp5b2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Methanothermobacter thermautotrophicus str. Delta H ) [TaxId: 187420 ],	SCOPe (2.08)
A	d4yp5a1	Alpha and beta proteins (a/b)	Adenine nucleotide alpha hydrolase-like	Nucleotidylyl transferase	Adenylyltransferase	Nicotinamide mononucleotide (NMN) adenylyltransferase	(Methanothermobacter thermautotrophicus str. Delta H ) [TaxId: 187420 ],	SCOPe (2.08)
A	d4yp5a2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Methanothermobacter thermautotrophicus str. Delta H ) [TaxId: 187420 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2B Superfamily	Nucleotidylyl transferase	8032715	3001541	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Nucleotidylyl transferase	8032715	3001541	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Nucleotidylyl transferase	8032715	3001541	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	GET4	e4yp5C1	A: alpha bundles	X: PH domain-like	H: PH domain-like	T: PH domain-like	F: GET4	ECOD (develop294)
B	GET4	e4yp5B1	A: alpha bundles	X: PH domain-like	H: PH domain-like	T: PH domain-like	F: GET4	ECOD (develop294)
A	Response_reg	e4yp5A1	A: alpha bundles	X: C-terminal additional helical subdomain in reovirus polymerase lambda3	H: C-terminal additional helical subdomain in reovirus polymerase lambda3	T: C-terminal additional helical subdomain in reovirus polymerase lambda3	F: Response_reg	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	3.40.50.620	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HUPs	CATH (4.3.0)
B	3.40.50.620	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HUPs	CATH (4.3.0)
A	3.40.50.620	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HUPs	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF01467	Cytidylyltransferase-like (CTP_transf_like)	Cytidylyltransferase-like	This family includes: Cholinephosphate cytidylyltransferase Swiss:P49585; glycerol-3-phosphate cytidylyltransferase Swiss:P27623. It also includes putative adenylyltransferases, and FAD synthases.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	Nicotinamide-nucleotide adenylyltransferase	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding adenylyltransferase activity nicotinamide-nucleotide adenylyltransferase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups	NAD+ biosynthetic process nucleotide biosynthetic process nucleobase-containing compound metabolic process purine nucleotide metabolic process nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process phosphate-containing compound metabolic process pyridine-containing compound metabolic process small molecule metabolic process phosphorus metabolic process NAD+ metabolic process pyridine nucleotide biosynthetic process nucleoside phosphate metabolic process nicotinamide nucleotide metabolic process NAD+ biosynthetic process nucleotide biosynthetic process nucleobase-containing compound metabolic process purine nucleotide metabolic process nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process phosphate-containing compound metabolic process pyridine-containing compound metabolic process small molecule metabolic process phosphorus metabolic process NAD+ metabolic process pyridine nucleotide biosynthetic process nucleoside phosphate metabolic process nicotinamide nucleotide metabolic process pyridine-containing compound biosynthetic process primary metabolic process nucleotide metabolic process nucleobase-containing compound biosynthetic process purine-containing compound metabolic process nicotinamide nucleotide biosynthetic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process nucleoside phosphate biosynthetic process metabolic process cellular process purine nucleotide biosynthetic process	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR004821	Cytidyltransferase-like domain	Domain
A, B, C	IPR006418	Nicotinamide-nucleotide adenylyltransferase, archaea	Family
A, B, C	IPR014729	Rossmann-like alpha/beta/alpha sandwich fold	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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.