2IA5 | pdb_00002ia5

T4 polynucleotide kinase/phosphatase with bound sulfate and magnesium.

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	d2ia5a2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Nucleotide and nucleoside kinases	Polynucleotide kinase, kinase domain	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
A	d2ia5a1	Alpha and beta proteins (a/b)	HAD-like	HAD-like	phosphatase domain of polynucleotide kinase	Polynucleotide kinase, phosphatase domain	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
B	d2ia5b2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Nucleotide and nucleoside kinases	Polynucleotide kinase, kinase domain	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
B	d2ia5b1	Alpha and beta proteins (a/b)	HAD-like	HAD-like	phosphatase domain of polynucleotide kinase	Polynucleotide kinase, phosphatase domain	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
C	d2ia5c2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Nucleotide and nucleoside kinases	Polynucleotide kinase, kinase domain	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
C	d2ia5c1	Alpha and beta proteins (a/b)	HAD-like	HAD-like	phosphatase domain of polynucleotide kinase	Polynucleotide kinase, phosphatase domain	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
D	d2ia5d2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Nucleotide and nucleoside kinases	Polynucleotide kinase, kinase domain	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
D	d2ia5d1	Alpha and beta proteins (a/b)	HAD-like	HAD-like	phosphatase domain of polynucleotide kinase	Polynucleotide kinase, phosphatase domain	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
E	d2ia5e2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Nucleotide and nucleoside kinases	Polynucleotide kinase, kinase domain	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
E	d2ia5e1	Alpha and beta proteins (a/b)	HAD-like	HAD-like	phosphatase domain of polynucleotide kinase	Polynucleotide kinase, phosphatase domain	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
F	d2ia5f2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Nucleotide and nucleoside kinases	Polynucleotide kinase, kinase domain	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
F	d2ia5f1	Alpha and beta proteins (a/b)	HAD-like	HAD-like	phosphatase domain of polynucleotide kinase	Polynucleotide kinase, phosphatase domain	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
G	d2ia5g2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Nucleotide and nucleoside kinases	Polynucleotide kinase, kinase domain	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
G	d2ia5g1	Alpha and beta proteins (a/b)	HAD-like	HAD-like	phosphatase domain of polynucleotide kinase	Polynucleotide kinase, phosphatase domain	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
H	d2ia5h2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Nucleotide and nucleoside kinases	Polynucleotide kinase, kinase domain	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
H	d2ia5h1	Alpha and beta proteins (a/b)	HAD-like	HAD-like	phosphatase domain of polynucleotide kinase	Polynucleotide kinase, phosphatase domain	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
I	d2ia5i2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Nucleotide and nucleoside kinases	Polynucleotide kinase, kinase domain	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
I	d2ia5i1	Alpha and beta proteins (a/b)	HAD-like	HAD-like	phosphatase domain of polynucleotide kinase	Polynucleotide kinase, phosphatase domain	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
J	d2ia5j2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Nucleotide and nucleoside kinases	Polynucleotide kinase, kinase domain	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
J	d2ia5j1	Alpha and beta proteins (a/b)	HAD-like	HAD-like	phosphatase domain of polynucleotide kinase	Polynucleotide kinase, phosphatase domain	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
K	d2ia5k2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Nucleotide and nucleoside kinases	Polynucleotide kinase, kinase domain	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
K	d2ia5k1	Alpha and beta proteins (a/b)	HAD-like	HAD-like	phosphatase domain of polynucleotide kinase	Polynucleotide kinase, phosphatase domain	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
L	d2ia5l2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Nucleotide and nucleoside kinases	Polynucleotide kinase, kinase domain	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)
L	d2ia5l1	Alpha and beta proteins (a/b)	HAD-like	HAD-like	phosphatase domain of polynucleotide kinase	Polynucleotide kinase, phosphatase domain	(Tequatrovirus T4 ) [TaxId: 10665 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	P-loop nucleotide/nucleoside kinase-like	8019145	3002021	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	HAD-like	8019148	3001890	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	HAD-like	8019148	3001890	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	P-loop nucleotide/nucleoside kinase-like	8019145	3002021	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	P-loop nucleotide/nucleoside kinase-like	8019145	3002021	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	HAD-like	8019148	3001890	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	P-loop nucleotide/nucleoside kinase-like	8019145	3002021	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	HAD-like	8019148	3001890	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	P-loop nucleotide/nucleoside kinase-like	8019145	3002021	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	HAD-like	8019148	3001890	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	HAD-like	8019148	3001890	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	P-loop nucleotide/nucleoside kinase-like	8019145	3002021	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	P-loop nucleotide/nucleoside kinase-like	8019145	3002021	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	HAD-like	8019148	3001890	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	HAD-like	8019148	3001890	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	P-loop nucleotide/nucleoside kinase-like	8019145	3002021	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	HAD-like	8019148	3001890	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	P-loop nucleotide/nucleoside kinase-like	8019145	3002021	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	HAD-like	8019148	3001890	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	P-loop nucleotide/nucleoside kinase-like	8019145	3002021	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	HAD-like	8019148	3001890	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	P-loop nucleotide/nucleoside kinase-like	8019145	3002021	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	HAD-like	8019148	3001890	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	P-loop nucleotide/nucleoside kinase-like	8019145	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)
A	GBP	e2ia5A1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: GBP	ECOD (v294.1)
A	TOP6A-Spo11_Toprim	e2ia5A2	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: TOP6A-Spo11_Toprim	ECOD (v294.1)
B	GBP	e2ia5B1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: GBP	ECOD (v294.1)
B	TOP6A-Spo11_Toprim	e2ia5B2	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: TOP6A-Spo11_Toprim	ECOD (v294.1)
C	GBP	e2ia5C1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: GBP	ECOD (v294.1)
C	TOP6A-Spo11_Toprim	e2ia5C2	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: TOP6A-Spo11_Toprim	ECOD (v294.1)
D	GBP	e2ia5D1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: GBP	ECOD (v294.1)
D	TOP6A-Spo11_Toprim	e2ia5D2	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: TOP6A-Spo11_Toprim	ECOD (v294.1)
E	GBP	e2ia5E1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: GBP	ECOD (v294.1)
E	TOP6A-Spo11_Toprim	e2ia5E2	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: TOP6A-Spo11_Toprim	ECOD (v294.1)
F	GBP	e2ia5F1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: GBP	ECOD (v294.1)
F	TOP6A-Spo11_Toprim	e2ia5F2	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: TOP6A-Spo11_Toprim	ECOD (v294.1)
G	GBP	e2ia5G1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: GBP	ECOD (v294.1)
G	TOP6A-Spo11_Toprim	e2ia5G2	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: TOP6A-Spo11_Toprim	ECOD (v294.1)
H	GBP	e2ia5H1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: GBP	ECOD (v294.1)
H	TOP6A-Spo11_Toprim	e2ia5H2	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: TOP6A-Spo11_Toprim	ECOD (v294.1)
I	GBP	e2ia5I1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: GBP	ECOD (v294.1)
I	TOP6A-Spo11_Toprim	e2ia5I2	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: TOP6A-Spo11_Toprim	ECOD (v294.1)
J	GBP	e2ia5J1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: GBP	ECOD (v294.1)
J	TOP6A-Spo11_Toprim	e2ia5J2	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: TOP6A-Spo11_Toprim	ECOD (v294.1)
K	GBP	e2ia5K1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: GBP	ECOD (v294.1)
K	TOP6A-Spo11_Toprim	e2ia5K2	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: TOP6A-Spo11_Toprim	ECOD (v294.1)
L	GBP	e2ia5L1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: GBP	ECOD (v294.1)
L	TOP6A-Spo11_Toprim	e2ia5L2	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: TOP6A-Spo11_Toprim	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
A	3.40.50.1000	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HAD superfamily/HAD-like	CATH (4.3.0)
B	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
B	3.40.50.1000	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HAD superfamily/HAD-like	CATH (4.3.0)
C	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
C	3.40.50.1000	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HAD superfamily/HAD-like	CATH (4.3.0)
D	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
D	3.40.50.1000	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HAD superfamily/HAD-like	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)
E	3.40.50.1000	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HAD superfamily/HAD-like	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)
F	3.40.50.1000	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HAD superfamily/HAD-like	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)
G	3.40.50.1000	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HAD superfamily/HAD-like	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)
H	3.40.50.1000	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HAD superfamily/HAD-like	CATH (4.3.0)
I	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
I	3.40.50.1000	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HAD superfamily/HAD-like	CATH (4.3.0)
J	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
J	3.40.50.1000	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HAD superfamily/HAD-like	CATH (4.3.0)
K	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
K	3.40.50.1000	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HAD superfamily/HAD-like	CATH (4.3.0)
L	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
L	3.40.50.1000	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HAD superfamily/HAD-like	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	PF13671	AAA domain (AAA_33)	AAA domain	This family of domains contain only a P-loop motif, that is characteristic of the AAA superfamily. Many of the proteins in this family are just short fragments so there is no Walker B motif.	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	PF25109	Polynucleotide kinase PNKP phosphatase domain (HAD_PNKP)	Polynucleotide kinase PNKP phosphatase domain	This entry represents the C-terminal domain of the bifunctional enzyme T4 polynucleotide kinase/phosphatase, PNKP (also known as PseT). The PNKP phosphatase domain can catalyse the hydrolytic removal of the 3'-phosphoryl of DNA, RNA and deoxynucleosi ...	This entry represents the C-terminal domain of the bifunctional enzyme T4 polynucleotide kinase/phosphatase, PNKP (also known as PseT). The PNKP phosphatase domain can catalyse the hydrolytic removal of the 3'-phosphoryl of DNA, RNA and deoxynucleoside 3'-monophosphates [1,2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	Polynucleotide kinase	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 nucleobase-containing compound kinase activity polynucleotide 5'-hydroxyl-kinase activity kinase activity ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity transferase activity ATP-dependent polynucleotide 5'-hydroxyl-kinase activity catalytic activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups phosphoric ester hydrolase activity deoxynucleotide 3'-phosphatase activity hydrolase activity, acting on ester bonds phosphatase activity hydrolase activity	cellular response to stimulus response to stimulus primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process cellular response to stress DNA damage response response to stress metabolic process cellular process macromolecule metabolic process DNA repair	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR056782	Polynucleotide kinase, PNKP phosphatase domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR044493	Polynucleotide kinase PNKP, C-terminal phosphatase domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR036412	HAD-like superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR023214	HAD superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily