4E2I | pdb_00004e2i

The Complex Structure of the SV40 Helicase Large T Antigen and p68 Subunit of DNA Polymerase Alpha-Primase

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
L	SCOP2B Superfamily	RecA-like P-loop NTPases	8042358	3002019	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	RecA-like P-loop NTPases	8042358	3002019	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	RecA-like P-loop NTPases	8042358	3002019	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	RecA-like P-loop NTPases	8042358	3002019	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	RecA-like P-loop NTPases	8042358	3002019	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	RecA-like P-loop NTPases	8042358	3002019	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	RecA-like P-loop NTPases	8042358	3002019	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	RecA-like P-loop NTPases	8042358	3002019	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	RecA-like P-loop NTPases	8042358	3002019	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	RecA-like P-loop NTPases	8042358	3002019	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	RecA-like P-loop NTPases	8042358	3002019	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	RecA-like P-loop NTPases	8042358	3002019	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)
W [auth 8]	V-set	e4e2i81	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (v294.1)
V [auth 4]	V-set	e4e2i41	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (v294.1)
U [auth 1]	V-set	e4e2i11	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (v294.1)
T [auth 9]	V-set	e4e2i91	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (v294.1)
S [auth 7]	V-set	e4e2i71	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (v294.1)
R [auth 5]	V-set	e4e2i51	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (v294.1)
Q [auth W]	V-set	e4e2iW1	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (v294.1)
P [auth U]	V-set	e4e2iU1	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (v294.1)
O [auth 6]	V-set	e4e2i61	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (v294.1)
N [auth 3]	V-set	e4e2i31	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (v294.1)
M [auth 2]	Amidohydro_1	e4e2i21	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Amidohydro_1	ECOD (v294.1)
L	PALP	e4e2iL1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PALP	ECOD (v294.1)
K	PALP	e4e2iK1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PALP	ECOD (v294.1)
J	PALP	e4e2iJ1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PALP	ECOD (v294.1)
I	PALP	e4e2iI1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PALP	ECOD (v294.1)
H	PALP	e4e2iH1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PALP	ECOD (v294.1)
G	PALP	e4e2iG1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PALP	ECOD (v294.1)
F	PALP	e4e2iF1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PALP	ECOD (v294.1)
E	PALP	e4e2iE1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PALP	ECOD (v294.1)
D	PALP	e4e2iD1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PALP	ECOD (v294.1)
C	PALP	e4e2iC1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PALP	ECOD (v294.1)
B	PALP	e4e2iB1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PALP	ECOD (v294.1)
A	PALP	e4e2iA1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PALP	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
M [auth 2], N [auth 3], O [auth 6], P [auth U], Q [auth W], M [auth 2], N [auth 3], O [auth 6], P [auth U], Q [auth W], R [auth 5], S [auth 7], T [auth 9], U [auth 1], V [auth 4], W [auth 8]	PF08418	DNA polymerase alpha subunit B N-terminal (Pol_alpha_B_N)	DNA polymerase alpha subunit B N-terminal	This is the eukaryotic DNA polymerase alpha subunit B N-terminal domain which is involved in complex formation [1,4]. This domain docks on the SV40 helicase and activates the viral primosome [3].	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	PF06431	Polyomavirus large T antigen C-terminus (Polyoma_lg_T_C)	Polyomavirus large T antigen C-terminus	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
M [auth 2], N [auth 3], O [auth 6], P [auth U], Q [auth W], M [auth 2], N [auth 3], O [auth 6], P [auth U], Q [auth W], R [auth 5], S [auth 7], T [auth 9], U [auth 1], V [auth 4], W [auth 8]	DNA polymerase alpha subunit B	DNA binding binding nucleic acid binding	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process DNA-templated DNA replication DNA replication initiation establishment of protein localization cellular localization nucleocytoplasmic transport transport nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process DNA-templated DNA replication DNA replication initiation establishment of protein localization cellular localization nucleocytoplasmic transport transport nuclear transport intracellular transport protein localization to nucleus establishment of localization localization import into nucleus establishment of protein localization to organelle protein transport establishment of localization in cell macromolecule localization protein localization to organelle protein import into nucleus intracellular protein localization intracellular protein transport DNA replication, synthesis of primer RNA metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process RNA biosynthetic process nucleic acid biosynthetic process biosynthetic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle protein-containing complex alpha DNA polymerase:primase complex nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome chromosome transferase complex intracellular organelle lumen cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle protein-containing complex alpha DNA polymerase:primase complex nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome chromosome transferase complex intracellular organelle lumen intracellular organelle nuclear replisome nucleoplasm membraneless organelle replication fork catalytic complex protein-DNA complex nuclear replication fork intracellular membraneless organelle intracellular membrane-bounded organelle DNA polymerase complex transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen organelle RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen replisome cilium plasma membrane bounded cell projection ciliary basal body cell projection microtubule organizing center cytoskeleton microtubule cytoskeleton
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	Large T antigen	DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding double-stranded DNA binding binding nucleic acid binding DNA replication origin binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding double-stranded DNA binding binding nucleic acid binding DNA replication origin 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 pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity ATP-dependent activity cation binding transition metal ion binding zinc ion binding metal ion binding nucleic acid conformation isomerase activity isomerase activity DNA helicase activity catalytic activity, acting on a nucleic acid helicase activity 3'-5' DNA helicase activity ATP-dependent activity, acting on DNA catalytic activity, acting on DNA macromolecular conformation isomerase activity identical protein binding protein binding single-stranded DNA binding	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process symbiont-mediated suppression of host signal transduction pathway symbiont-mediated suppression of host JAK-STAT cascade via inhibition of JAK1 activity symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms symbiont-mediated suppression of host JAK-STAT cascade symbiont-mediated perturbation of host process nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process symbiont-mediated suppression of host signal transduction pathway symbiont-mediated suppression of host JAK-STAT cascade via inhibition of JAK1 activity symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms symbiont-mediated suppression of host JAK-STAT cascade symbiont-mediated perturbation of host process symbiont-mediated perturbation of host signal transduction pathway modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction viral DNA genome replication viral life cycle nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid biosynthetic process biosynthetic process viral genome replication viral process DNA biosynthetic process bidirectional double-stranded viral DNA replication symbiont-mediated perturbation of host ubiquitin-like protein modification symbiont-mediated perturbation of host cell cycle progression symbiont-mediated perturbation of host cell cycle G1/S transition checkpoint symbiont-mediated perturbation of host defense response symbiont-mediated suppression of host immune response symbiont-mediated suppression of host innate immune response symbiont-mediated perturbation of host immune response symbiont-mediated perturbation of host innate immune response symbiont-mediated suppression of host interferon-mediated signaling pathway symbiont-mediated suppression of host type I interferon-mediated signaling pathway	host intracellular membrane-bounded organelle host cellular component host intracellular part cellular anatomical structure host cell part host intracellular region host cell nucleus other organism part host intracellular organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
M [auth 2], N [auth 3], O [auth 6], P [auth U], Q [auth W], M [auth 2], N [auth 3], O [auth 6], P [auth U], Q [auth W], R [auth 5], S [auth 7], T [auth 9], U [auth 1], V [auth 4], W [auth 8]	IPR043034	DNA polymerase alpha, subunit B, N-terminal domain superfamily	Homologous Superfamily
M [auth 2], N [auth 3], O [auth 6], P [auth U], Q [auth W], M [auth 2], N [auth 3], O [auth 6], P [auth U], Q [auth W], R [auth 5], S [auth 7], T [auth 9], U [auth 1], V [auth 4], W [auth 8]	IPR007185	DNA polymerase alpha/delta/epsilon, subunit B	Domain
M [auth 2], N [auth 3], O [auth 6], P [auth U], Q [auth W], M [auth 2], N [auth 3], O [auth 6], P [auth U], Q [auth W], R [auth 5], S [auth 7], T [auth 9], U [auth 1], V [auth 4], W [auth 8]	IPR054300	DNA polymerase alpha subunit B, OB domain	Domain
M [auth 2], N [auth 3], O [auth 6], P [auth U], Q [auth W], M [auth 2], N [auth 3], O [auth 6], P [auth U], Q [auth W], R [auth 5], S [auth 7], T [auth 9], U [auth 1], V [auth 4], W [auth 8]	IPR013627	DNA polymerase alpha, subunit B, N-terminal	Domain
M [auth 2], N [auth 3], O [auth 6], P [auth U], Q [auth W], M [auth 2], N [auth 3], O [auth 6], P [auth U], Q [auth W], R [auth 5], S [auth 7], T [auth 9], U [auth 1], V [auth 4], W [auth 8]	IPR016722	DNA polymerase alpha, subunit B	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR001623	DnaJ domain	Domain
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
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR017910	Zinc finger, large T-antigen D1-type	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR003133	T antigen, Ori-binding	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR037102	Zinc finger, large T-antigen D1 domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR036869	Chaperone J-domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR014015	Helicase, superfamily 3, DNA virus	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR016392	Large T antigen, polyomaviridae	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR010932	Large T antigen, polyomavirus, C-terminal	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
M [auth 2], N [auth 3], O [auth 6], P [auth U], Q [auth W], M [auth 2], N [auth 3], O [auth 6], P [auth U], Q [auth W], R [auth 5], S [auth 7], T [auth 9], U [auth 1], V [auth 4], W [auth 8]	Pharos: Q14181	large cell medulloblastoma osteosarcoma malignant mesothelioma non-small cell lung carcinoma