2C95 | pdb_00002c95

Structure of adenylate kinase 1 in complex with P1,P4-di(adenosine) tetraphosphate

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
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d2c95b1	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Nucleotide and nucleoside kinases	automated matches	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d2c95b2	Artifacts	Tags	Tags	Tags	C-terminal Tags	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d2c95a1	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Nucleotide and nucleoside kinases	automated matches	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d2c95a2	Artifacts	Tags	Tags	Tags	N-terminal Tags	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	P-loop nucleotide/nucleoside kinase-like	8054334	3002021	SCOP2B (2022-06-29)
A	SCOP2 Family	Adenylate kinase-like	8054333	4004025	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	P-loop nucleotide/nucleoside kinase-like	8054334	3002021	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)
B	HTHP	e2c95B1	A: alpha bundles	X: HTH	H: Nudix	T: Nudix	F: HTHP	ECOD (develop294)
A	Cyt-b5	e2c95A1	A: alpha bundles	X: Profilin-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Cyt-b5	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
A	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00406	Adenylate kinase (ADK)	Adenylate kinase		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	ADENYLATE KINASE 1	nucleobase-containing compound kinase activity nucleoside monophosphate kinase activity kinase activity AMP kinase activity transferase activity catalytic activity phosphotransferase activity, phosphate group as acceptor transferase activity, transferring phosphorus-containing groups binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding nucleobase-containing compound kinase activity nucleoside monophosphate kinase activity kinase activity AMP kinase activity transferase activity catalytic activity phosphotransferase activity, phosphate group as acceptor transferase activity, transferring phosphorus-containing groups 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 nucleoside diphosphate kinase activity deoxynucleoside phosphate kinase activity, ATP as phosphate donor dAMP kinase activity	ribose phosphate metabolic process nucleotide biosynthetic process carbohydrate derivative metabolic process purine ribonucleotide biosynthetic process purine ribonucleoside diphosphate biosynthetic process nucleobase-containing compound metabolic process ribonucleotide biosynthetic process nucleoside diphosphate biosynthetic process purine nucleotide metabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process phosphate-containing compound metabolic process ribonucleoside diphosphate metabolic process ribose phosphate metabolic process nucleotide biosynthetic process carbohydrate derivative metabolic process purine ribonucleotide biosynthetic process purine ribonucleoside diphosphate biosynthetic process nucleobase-containing compound metabolic process ribonucleotide biosynthetic process nucleoside diphosphate biosynthetic process purine nucleotide metabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process phosphate-containing compound metabolic process ribonucleoside diphosphate metabolic process ADP biosynthetic process small molecule metabolic process phosphorus metabolic process ribose phosphate biosynthetic process nucleoside phosphate metabolic process carbohydrate derivative biosynthetic process purine nucleoside diphosphate metabolic process primary metabolic process purine nucleoside diphosphate biosynthetic process nucleotide metabolic process nucleobase-containing compound biosynthetic process purine-containing compound metabolic process ADP metabolic process nucleoside diphosphate metabolic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process nucleoside phosphate biosynthetic process purine ribonucleoside diphosphate metabolic process metabolic process cellular process purine ribonucleotide metabolic process purine nucleotide biosynthetic process ribonucleoside diphosphate biosynthetic process purine nucleoside triphosphate metabolic process ATP metabolic process purine ribonucleoside triphosphate metabolic process nucleoside triphosphate metabolic process AMP metabolic process purine ribonucleoside monophosphate metabolic process purine nucleoside monophosphate metabolic process nucleoside monophosphate metabolic process nucleobase-containing small molecule interconversion nucleoside triphosphate biosynthetic process	polymeric cytoskeletal fiber membrane-bounded organelle outer dense fiber intracellular anatomical structure intracellular membraneless organelle cilium 9+2 motile cilium motile cilium plasma membrane bounded cell projection intracellular organelle cell projection cellular anatomical structure cytoskeleton organelle polymeric cytoskeletal fiber membrane-bounded organelle outer dense fiber intracellular anatomical structure intracellular membraneless organelle cilium 9+2 motile cilium motile cilium plasma membrane bounded cell projection intracellular organelle cell projection cellular anatomical structure cytoskeleton organelle membraneless organelle supramolecular fiber supramolecular polymer supramolecular complex sperm flagellum extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space vesicle extracellular membrane-bounded organelle cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR000850	Adenylate kinase/UMP-CMP kinase	Family
A, B	IPR033690	Adenylate kinase, conserved site	Conserved Site
A, B	IPR028582	Adenylate kinase isoenzyme 1	Family
A, B	IPR006267	Adenylate kinase, isozyme 1/5	Family
A, B	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: P00568	hemolytic anemia due to adenylate kinase deficiency familial hemolytic anemia mantle cell lymphoma congenital anemia intellectual disability Malignant lymphoma, lymphocytic, intermediate differentiation, diffuse primary angle-closure glaucoma coronary artery disease hemolytic anemia malignant ependymoma myocardial ischemia

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.