8FLJ | pdb_00008flj

Cas1-Cas2/3 integrase and IHF bound to CRISPR leader, repeat and foreign DNA

External Resource: Annotation

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	CRISPR associated protein Cas1	8053181	3002164	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	CRISPR associated protein Cas1	8053181	3002164	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	CRISPR associated protein Cas1	8053181	3002164	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	CRISPR associated protein Cas1	8053181	3002164	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)
N	Glyco_hydro_43	e8fljN1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Glyco_hydro_43	ECOD (v294.1)
M	SPRY,PRY	e8fljM1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: SPRY,PRY	ECOD (v294.1)
H	Glyco_hydro_43	e8fljH1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Glyco_hydro_43	ECOD (v294.1)
F	SPRY,PRY	e8fljF1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: SPRY,PRY	ECOD (v294.1)
G	SPRY,PRY	e8fljG1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: SPRY,PRY	ECOD (v294.1)
E	Glyco_hydro_43	e8fljE1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Glyco_hydro_43	ECOD (v294.1)
D	Glyco_hydro_43	e8fljD1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Glyco_hydro_43	ECOD (v294.1)
C	Glyco_hydro_43	e8fljC1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Glyco_hydro_43	ECOD (v294.1)
B	SPRY,PRY	e8fljB1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: SPRY,PRY	ECOD (v294.1)
A	Glyco_hydro_43	e8fljA1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Glyco_hydro_43	ECOD (v294.1)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
M, N	CRISPR-associated nuclease/helicase Cas3 subtype I-F/YPEST	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 nucleic acid conformation isomerase activity isomerase activity catalytic activity, acting on a nucleic acid helicase activity macromolecular conformation isomerase activity catalytic activity ATP-dependent activity hydrolase activity 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	-
L	Prespacer, anti-sense strand of DNA	-	-	-
K	CRISPR repeat and prespacer, sense strand of DNA	-	-	-
J	CRISPR leader and repeat, anti-sense strand of DNA	-	-	-
I	CRISPR leader, sense strand of DNA	-	-	-
F, H	Integration host factor subunit beta	DNA binding binding nucleic acid binding structural molecule activity structural constituent of chromatin	regulation of biosynthetic process regulation of biological process regulation of cellular process regulation of protein metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process gene expression translation macromolecule biosynthetic process protein biosynthetic process regulation of primary metabolic process post-transcriptional regulation of gene expression regulation of gene expression biosynthetic process regulation of biosynthetic process regulation of biological process regulation of cellular process regulation of protein metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process gene expression translation macromolecule biosynthetic process protein biosynthetic process regulation of primary metabolic process post-transcriptional regulation of gene expression regulation of gene expression biosynthetic process regulation of translation regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process protein metabolic process regulation of metabolic process RNA metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process nucleobase-containing compound biosynthetic process nucleic acid metabolic process regulation of DNA-templated transcription DNA recombination DNA metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol intracellular organelle organelle membraneless organelle intracellular membraneless organelle chromosome
E, G	Integration host factor subunit alpha	transcription regulator activity DNA-binding transcription factor activity DNA-binding transcription activator activity DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding binding double-stranded DNA binding nucleic acid binding transcription regulatory region nucleic acid binding structural molecule activity structural constituent of chromatin	regulation of biosynthetic process regulation of biological process regulation of cellular process regulation of protein metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process gene expression translation macromolecule biosynthetic process protein biosynthetic process regulation of primary metabolic process post-transcriptional regulation of gene expression regulation of gene expression biosynthetic process regulation of biosynthetic process regulation of biological process regulation of cellular process regulation of protein metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process gene expression translation macromolecule biosynthetic process protein biosynthetic process regulation of primary metabolic process post-transcriptional regulation of gene expression regulation of gene expression biosynthetic process regulation of translation regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process protein metabolic process regulation of metabolic process nucleobase-containing compound metabolic process DNA recombination DNA metabolic process nucleic acid metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex protein-DNA complex
A, B, C, D	CRISPR-associated endonuclease Cas1	DNA endonuclease activity endonuclease activity catalytic activity, acting on DNA nuclease activity catalytic activity, acting on a nucleic acid catalytic activity DNA nuclease activity DNA binding binding nucleic acid binding hydrolase activity cation binding ion binding metal ion binding DNA endonuclease activity endonuclease activity catalytic activity, acting on DNA nuclease activity catalytic activity, acting on a nucleic acid catalytic activity DNA nuclease activity DNA binding binding nucleic acid binding hydrolase activity cation binding ion binding metal ion binding small molecule binding identical protein binding protein 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 maintenance of CRISPR repeat elements chromosome organization primary metabolic process DNA metabolic process 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 maintenance of CRISPR repeat elements chromosome organization primary metabolic process DNA metabolic process maintenance of DNA repeat elements nucleic acid metabolic process cellular component organization nucleobase-containing compound metabolic process organelle organization cellular process metabolic process cellular component organization or biogenesis macromolecule metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
M, N	IPR054712	CRISPR-associated nuclease/helicase Cas3 domain	Domain
M, N	IPR048824	CRISPR-associated Cas3 subtype I-F/YPEST-like, C-terminal domain	Domain
M, N	IPR048823	CRISPR-associated nuclease/helicase Cas3, I-F/YPEST, Cas2 domain	Domain
M, N	IPR013395	CRISPR-associated Cas3, Yersinia-type	Family
M, N	IPR038257	CRISPR-associated Cas3-type HD domain superfamily	Homologous Superfamily
M, N	IPR006483	CRISPR-associated Cas3-type, HD domain	Domain
M, N	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
F, H	IPR020816	Histone-like DNA-binding protein, conserved site	Conserved Site
F, H	IPR010992	Integration host factor (IHF)-like DNA-binding domain superfamily	Homologous Superfamily
F, H	IPR005685	Integration host factor, beta subunit	Family
F, H	IPR000119	Histone-like DNA-binding protein	Family
E, G	IPR020816	Histone-like DNA-binding protein, conserved site	Conserved Site
E, G	IPR010992	Integration host factor (IHF)-like DNA-binding domain superfamily	Homologous Superfamily
E, G	IPR005684	Integration host factor, alpha subunit	Family
E, G	IPR000119	Histone-like DNA-binding protein	Family
A, B, C, D	IPR002729	CRISPR-associated protein Cas1	Family
A, B, C, D	IPR042206	CRISPR-associated endonuclease Cas1, C-terminal domain	Homologous Superfamily
A, B, C, D	IPR042211	CRISPR-associated endonuclease Cas1, N-terminal domain	Homologous Superfamily
A, B, C, D	IPR050646	CRISPR-associated endonuclease Cas1	Family
A, B, C, D	IPR019857	CRISPR-associated protein Cas1, YPEST subtype	Family