4QQZ | pdb_00004qqz

Crystal structure of T. fusca Cas3-AMPPNP

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
G	d4qqzg1	All alpha proteins	HD-domain/PDEase-like	HD-domain/PDEase-like	HD domain from Cas3-like	CRISPR-associated protein Cas3	(Thermobifida fusca YX ) [TaxId: 269800 ],	SCOPe (2.08)
G	d4qqzg2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Tandem AAA-ATPase domain	CRISPR-associated protein Cas3	(Thermobifida fusca YX ) [TaxId: 269800 ],	SCOPe (2.08)
G	d4qqzg4	Alpha and beta proteins (a+b)	Cas3 C-terminal domain-like	Cas3 C-terminal domain-like	Cas3 C-terminal domain-like	CRISPR-associated protein Cas3	(Thermobifida fusca YX ) [TaxId: 269800 ],	SCOPe (2.08)
E	d4qqze1	All alpha proteins	HD-domain/PDEase-like	HD-domain/PDEase-like	HD domain from Cas3-like	CRISPR-associated protein Cas3	(Thermobifida fusca YX ) [TaxId: 269800 ],	SCOPe (2.08)
E	d4qqze2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Tandem AAA-ATPase domain	CRISPR-associated protein Cas3	(Thermobifida fusca YX ) [TaxId: 269800 ],	SCOPe (2.08)
E	d4qqze4	Alpha and beta proteins (a+b)	Cas3 C-terminal domain-like	Cas3 C-terminal domain-like	Cas3 C-terminal domain-like	CRISPR-associated protein Cas3	(Thermobifida fusca YX ) [TaxId: 269800 ],	SCOPe (2.08)
C	d4qqzc1	All alpha proteins	HD-domain/PDEase-like	HD-domain/PDEase-like	HD domain from Cas3-like	CRISPR-associated protein Cas3	(Thermobifida fusca YX ) [TaxId: 269800 ],	SCOPe (2.08)
C	d4qqzc2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Tandem AAA-ATPase domain	CRISPR-associated protein Cas3	(Thermobifida fusca YX ) [TaxId: 269800 ],	SCOPe (2.08)
C	d4qqzc4	Alpha and beta proteins (a+b)	Cas3 C-terminal domain-like	Cas3 C-terminal domain-like	Cas3 C-terminal domain-like	CRISPR-associated protein Cas3	(Thermobifida fusca YX ) [TaxId: 269800 ],	SCOPe (2.08)
A	d4qqza1	All alpha proteins	HD-domain/PDEase-like	HD-domain/PDEase-like	HD domain from Cas3-like	CRISPR-associated protein Cas3	(Thermobifida fusca YX ) [TaxId: 269800 ],	SCOPe (2.08)
A	d4qqza2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Tandem AAA-ATPase domain	CRISPR-associated protein Cas3	(Thermobifida fusca YX ) [TaxId: 269800 ],	SCOPe (2.08)
A	d4qqza4	Alpha and beta proteins (a+b)	Cas3 C-terminal domain-like	Cas3 C-terminal domain-like	Cas3 C-terminal domain-like	CRISPR-associated protein Cas3	(Thermobifida fusca YX ) [TaxId: 269800 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
G	PRK09694	e4qqzG2	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: PRK09694	ECOD (1.6)
G	EUF08471	e4qqzG4	A: a+b two layers	X: Cas3 C-terminal domain	H: Cas3 C-terminal domain (From Topology)	T: Cas3 C-terminal domain	F: EUF08471	ECOD (1.6)
G	DEAD_1	e4qqzG3	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: DEAD_1	ECOD (1.6)
G	Helicase_C_6	e4qqzG1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Helicase_C_6	ECOD (1.6)
E	PRK09694	e4qqzE2	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: PRK09694	ECOD (1.6)
E	EUF08471	e4qqzE4	A: a+b two layers	X: Cas3 C-terminal domain	H: Cas3 C-terminal domain (From Topology)	T: Cas3 C-terminal domain	F: EUF08471	ECOD (1.6)
E	DEAD_1	e4qqzE3	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: DEAD_1	ECOD (1.6)
E	Helicase_C_6	e4qqzE1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Helicase_C_6	ECOD (1.6)
C	PRK09694	e4qqzC2	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: PRK09694	ECOD (1.6)
C	EUF08471	e4qqzC4	A: a+b two layers	X: Cas3 C-terminal domain	H: Cas3 C-terminal domain (From Topology)	T: Cas3 C-terminal domain	F: EUF08471	ECOD (1.6)
C	DEAD_1	e4qqzC3	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: DEAD_1	ECOD (1.6)
C	Helicase_C_6	e4qqzC1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Helicase_C_6	ECOD (1.6)
A	PRK09694	e4qqzA2	A: alpha complex topology	X: PDEase-like	H: HD-domain/PDEase-like (From Topology)	T: HD-domain/PDEase-like	F: PRK09694	ECOD (1.6)
A	EUF08471	e4qqzA4	A: a+b two layers	X: Cas3 C-terminal domain	H: Cas3 C-terminal domain (From Topology)	T: Cas3 C-terminal domain	F: EUF08471	ECOD (1.6)
A	DEAD_1	e4qqzA3	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: DEAD_1	ECOD (1.6)
A	Helicase_C_6	e4qqzA1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Helicase_C_6	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
G	1.10.3210.30	Mainly Alpha	Orthogonal Bundle	Hypothetical protein af1432		CATH (4.2.0)
E	1.10.3210.30	Mainly Alpha	Orthogonal Bundle	Hypothetical protein af1432		CATH (4.2.0)
C	1.10.3210.30	Mainly Alpha	Orthogonal Bundle	Hypothetical protein af1432		CATH (4.2.0)
A	1.10.3210.30	Mainly Alpha	Orthogonal Bundle	Hypothetical protein af1432		CATH (4.2.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, D, F, H	DNA (5'-D(PAPAPAPAPAPAPAPAPAPAPAPA)-3')	-	-	-
A, C, E, G	CRISPR-associated helicase, Cas3 family	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 nuclease activity catalytic activity, acting on a nucleic acid catalytic activity hydrolase activity nucleic acid conformation isomerase activity isomerase activity catalytic activity, acting on RNA helicase activity RNA helicase activity ATP-dependent activity, acting on RNA macromolecular conformation isomerase activity ATP-dependent activity RNA binding nucleic acid binding cation binding metal ion binding	biological process involved in interspecies interaction between organisms defense response to virus response to stimulus defense response response to other organism response to stress response to external stimulus response to external biotic stimulus response to virus response to biotic stimulus	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C, E, G	IPR001650	Helicase, C-terminal domain-like	Domain
A, C, E, G	IPR038257	CRISPR-associated Cas3-type HD domain superfamily	Homologous Superfamily
A, C, E, G	IPR054712	CRISPR-associated nuclease/helicase Cas3 domain	Domain
A, C, E, G	IPR006474	Helicase Cas3, CRISPR-associated, core	Domain
A, C, E, G	IPR050547	DEAD box ATP-dependent RNA helicases	Family
A, C, E, G	IPR006483	CRISPR-associated Cas3-type, HD domain	Domain
A, C, E, G	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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.