4GI7

Crystal structure of Klebsiella pneumoniae pantothenate kinase in complex with a pantothenate analogue

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)
D	d4gi7d_	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Phosphoribulokinase/pantothenate kinase	automated matches	(Klebsiella pneumoniae 342 ) [TaxId: 507522 ],	SCOPe (2.08)
A	d4gi7a_	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Phosphoribulokinase/pantothenate kinase	automated matches	(Klebsiella pneumoniae 342 ) [TaxId: 507522 ],	SCOPe (2.08)
B [auth C]	d4gi7c_	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Phosphoribulokinase/pantothenate kinase	automated matches	(Klebsiella pneumoniae 342 ) [TaxId: 507522 ],	SCOPe (2.08)
C [auth B]	d4gi7b_	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Phosphoribulokinase/pantothenate kinase	automated matches	(Klebsiella pneumoniae 342 ) [TaxId: 507522 ],	SCOPe (2.08)
E	d4gi7e_	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Phosphoribulokinase/pantothenate kinase	automated matches	(Klebsiella pneumoniae 342 ) [TaxId: 507522 ],	SCOPe (2.08)
F	d4gi7f_	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Phosphoribulokinase/pantothenate kinase	automated matches	(Klebsiella pneumoniae 342 ) [TaxId: 507522 ],	SCOPe (2.08)
G	d4gi7g_	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Phosphoribulokinase/pantothenate kinase	automated matches	(Klebsiella pneumoniae 342 ) [TaxId: 507522 ],	SCOPe (2.08)
H	d4gi7h_	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Phosphoribulokinase/pantothenate kinase	automated matches	(Klebsiella pneumoniae 342 ) [TaxId: 507522 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	P-loop nucleotide/nucleoside kinase-like	8089809	3002021	SCOP2B (2022-06-29)
A	SCOP2 Family	Phosphoribulokinase/pantothenate kinase-like	8089808	4003940	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	P-loop nucleotide/nucleoside kinase-like	8089809	3002021	SCOP2 (2022-06-29)
B [auth C]	SCOP2B Superfamily	P-loop nucleotide/nucleoside kinase-like	8089809	3002021	SCOP2B (2022-06-29)
C [auth B]	SCOP2B Superfamily	P-loop nucleotide/nucleoside kinase-like	8089809	3002021	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	P-loop nucleotide/nucleoside kinase-like	8089809	3002021	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	P-loop nucleotide/nucleoside kinase-like	8089809	3002021	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	P-loop nucleotide/nucleoside kinase-like	8089809	3002021	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	P-loop nucleotide/nucleoside kinase-like	8089809	3002021	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)
D	PRK	e4gi7D1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PRK	ECOD (1.6)
A	PRK	e4gi7A1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PRK	ECOD (1.6)
B [auth C]	PRK	e4gi7C1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PRK	ECOD (1.6)
C [auth B]	PRK	e4gi7B1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PRK	ECOD (1.6)
E	PRK	e4gi7E1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PRK	ECOD (1.6)
F	PRK	e4gi7F1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PRK	ECOD (1.6)
G	PRK	e4gi7G1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PRK	ECOD (1.6)
H	PRK	e4gi7H1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PRK	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	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)
B [auth C]	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
C [auth B]	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
E	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
F	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
G	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
H	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 [auth C], C [auth B], D, E, A, B [auth C], C [auth B], D, E, F, G, H	PF00485	Phosphoribulokinase / Uridine kinase family (PRK)	Phosphoribulokinase / Uridine kinase family	This family matches three types of P-loop containing kinases: phosphoribulokinases [1], uridine kinases [2] and bacterial pantothenate kinases(CoaA) [3]. Arabidopsis and other organisms have a dual uridine kinase/uracil phosphoribosyltransferase pro ...	This family matches three types of P-loop containing kinases: phosphoribulokinases [1], uridine kinases [2] and bacterial pantothenate kinases(CoaA) [3]. Arabidopsis and other organisms have a dual uridine kinase/uracil phosphoribosyltransferase protein where the N-terminal region consists of a UK domain and the C-terminal region of a UPRT domain [4].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B [auth C], C [auth B], D, E, A, B [auth C], C [auth B], D, E, F, G, H	Pantothenate kinase	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding kinase activity transferase activity catalytic activity pantothenate kinase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups	phosphorylation phosphate-containing compound metabolic process metabolic process cellular process phosphorus metabolic process nucleoside phosphate metabolic process coenzyme A biosynthetic process primary metabolic process amide biosynthetic process nucleobase-containing compound biosynthetic process purine-containing compound metabolic process nucleobase-containing compound metabolic process sulfur compound biosynthetic process biosynthetic process phosphorylation phosphate-containing compound metabolic process metabolic process cellular process phosphorus metabolic process nucleoside phosphate metabolic process coenzyme A biosynthetic process primary metabolic process amide biosynthetic process nucleobase-containing compound biosynthetic process purine-containing compound metabolic process nucleobase-containing compound metabolic process sulfur compound biosynthetic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process nucleoside phosphate biosynthetic process small molecule metabolic process sulfur compound metabolic process amide metabolic process coenzyme A metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B [auth C], C [auth B], D, E, A, B [auth C], C [auth B], D, E, F, G, H	IPR004566	Pantothenate kinase	Family
A, B [auth C], C [auth B], D, E, A, B [auth C], C [auth B], D, E, F, G, H	IPR006083	Phosphoribulokinase/uridine kinase	Domain
A, B [auth C], C [auth B], D, E, A, B [auth C], C [auth B], D, E, F, G, H	IPR027417	P-loop containing nucleoside triphosphate hydrolase	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.