8ZP4 | pdb_00008zp4

Cryo-EM structure of origin recognition complex (Orc1 to 5) with ARS1 DNA bound

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Protein Family Annotation
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)
B	SCOP2B Superfamily	Winged helix DNA-binding domain	8090224	3000034	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	RecA-like P-loop NTPases	8090226	3002019	SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
G [auth E]	PF13191	AAA ATPase domain (AAA_16)	AAA ATPase domain	This family of domains contain a P-loop motif that is characteristic of the AAA superfamily.	Domain
G [auth E]	PF21639	ORC5, lid domain (ORC5_lid)	ORC5, lid domain	ORC5 is a component of the origin recognition complex (ORC) that binds origins of replication. ORC is required to assemble the pre-replication complex necessary to initiate DNA replication. This is the lid domain, which with the N-terminal RecA-fold ...	ORC5 is a component of the origin recognition complex (ORC) that binds origins of replication. ORC is required to assemble the pre-replication complex necessary to initiate DNA replication. This is the lid domain, which with the N-terminal RecA-fold domain, constitutes the well-known AAA+ domain [1].	Domain
G [auth E]	PF14630	Origin recognition complex (ORC) subunit 5 C-terminus (ORC5_C)	Origin recognition complex (ORC) subunit 5 C-terminus	This entry represents the C-terminus of origin recognition complex subunit 5 [1,2], which consists of a winged helix domain (WHD).	Domain
D	PF14629	Origin recognition complex (ORC) subunit 4 C-terminus (ORC4_C)	Origin recognition complex (ORC) subunit 4 C-terminus	-	Family
C	PF18137	Origin recognition complex winged helix C-terminal (WHD_ORC)	Origin recognition complex winged helix C-terminal	This is the C-terminal winged-helix (WH) DNA-binding domain of the origin recognition complex present in Drosophila melanogaster. The WH domain is responsible for recognizing origin sequences [1].	Domain
B	PF04084	Origin recognition complex subunit 2 RecA-like domain (RecA-like_ORC2)	Origin recognition complex subunit 2 RecA-like domain	All DNA replication initiation is driven by a single conserved eukaryotic initiator complex termed he origin recognition complex (ORC). The ORC is a six protein complex. This entry represents the RecA-like domain of ORC2 with no predicted ATPase acti ...	All DNA replication initiation is driven by a single conserved eukaryotic initiator complex termed he origin recognition complex (ORC). The ORC is a six protein complex. This entry represents the RecA-like domain of ORC2 with no predicted ATPase activity [2].	Domain
A	PF21312	Origin recognition complex subunit 1 C-terminal winged HTH domain (WHD_ORC1)	Origin recognition complex subunit 1 C-terminal winged HTH domain	This entry represents the C-terminal winged helix-turn-helix domain found in the Origin recognition complex subunit 1 protein [1].	Domain
A	PF17872	AAA lid domain (AAA_lid_10)	AAA lid domain	This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains.	Domain
A	PF00004	ATPase family associated with various cellular activities (AAA) (AAA)	ATPase family associated with various cellular activities (AAA)	AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
G [auth E]	Origin recognition complex subunit 5	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 DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding double-stranded DNA binding nucleic acid binding DNA replication origin binding	nucleobase-containing compound metabolic process DNA-templated DNA replication DNA replication DNA replication initiation metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process regulation of biological process regulation of cellular process biological regulation regulation of macromolecule metabolic process nucleobase-containing compound metabolic process DNA-templated DNA replication DNA replication DNA replication initiation metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process regulation of biological process regulation of cellular process biological regulation regulation of macromolecule metabolic process regulation of primary metabolic process regulation of nucleobase-containing compound metabolic process regulation of metabolic process regulation of DNA replication regulation of DNA metabolic process pre-replicative complex assembly nuclear DNA replication cell cycle DNA replication cellular component organization cellular component biogenesis protein-DNA complex organization cellular component assembly protein-containing complex assembly cell cycle cellular component organization or biogenesis cell cycle process pre-replicative complex assembly involved in nuclear cell cycle DNA replication protein-containing complex organization pre-replicative complex assembly involved in cell cycle DNA replication protein-DNA complex assembly negative regulation of biological process chromatin organization negative regulation of cellular process chromatin remodeling negative regulation of macromolecule metabolic process regulation of biosynthetic process heterochromatin formation epigenetic regulation of gene expression negative regulation of metabolic process heterochromatin organization gene expression macromolecule biosynthetic process regulation of gene expression negative regulation of gene expression constitutive heterochromatin formation biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process silent mating-type cassette heterochromatin formation negative regulation of gene expression, epigenetic regulation of macromolecule biosynthetic process	membrane-bounded organelle DNA replication preinitiation complex protein-containing complex intracellular anatomical structure protein-DNA complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen membrane-bounded organelle DNA replication preinitiation complex protein-containing complex intracellular anatomical structure protein-DNA complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen pre-replicative complex nuclear pre-replicative complex Cul8-RING ubiquitin ligase complex cullin-RING ubiquitin ligase complex ubiquitin ligase complex catalytic complex transferase complex intracellular protein-containing complex nuclear origin of replication recognition complex intracellular membraneless organelle nuclear chromosome chromosome origin recognition complex membraneless organelle
F [auth H]	DNA (31-MER)	-	-	-
E [auth G]	DNA (31-MER)	-	-	-
D	Origin recognition complex subunit 4	DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding double-stranded DNA binding binding nucleic acid binding DNA replication origin binding	pre-replicative complex assembly nuclear DNA replication cell cycle DNA replication nucleobase-containing compound metabolic process cellular component organization cellular component biogenesis protein-DNA complex organization cellular component assembly protein-containing complex assembly cell cycle cellular component organization or biogenesis cell cycle process pre-replicative complex assembly involved in nuclear cell cycle DNA replication DNA-templated DNA replication pre-replicative complex assembly nuclear DNA replication cell cycle DNA replication nucleobase-containing compound metabolic process cellular component organization cellular component biogenesis protein-DNA complex organization cellular component assembly protein-containing complex assembly cell cycle cellular component organization or biogenesis cell cycle process pre-replicative complex assembly involved in nuclear cell cycle DNA replication DNA-templated DNA replication protein-containing complex organization primary metabolic process pre-replicative complex assembly involved in cell cycle DNA replication protein-DNA complex assembly DNA metabolic process nucleic acid metabolic process DNA replication metabolic process cellular process macromolecule metabolic process regulation of cellular process negative regulation of biological process chromatin organization negative regulation of cellular process chromatin remodeling negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process heterochromatin formation epigenetic regulation of gene expression negative regulation of metabolic process biological regulation heterochromatin organization regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression negative regulation of gene expression constitutive heterochromatin formation biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process silent mating-type cassette heterochromatin formation negative regulation of gene expression, epigenetic regulation of macromolecule biosynthetic process regulation of metabolic process DNA replication initiation	membrane-bounded organelle DNA replication preinitiation complex protein-containing complex intracellular anatomical structure protein-DNA complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen membrane-bounded organelle DNA replication preinitiation complex protein-containing complex intracellular anatomical structure protein-DNA complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen pre-replicative complex nuclear pre-replicative complex nuclear origin of replication recognition complex intracellular membraneless organelle nuclear chromosome chromosome origin recognition complex membraneless organelle
C	Origin recognition complex subunit 3	DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding double-stranded DNA binding binding nucleic acid binding DNA replication origin binding chromatin binding	nucleobase-containing compound metabolic process DNA-templated DNA replication DNA replication DNA replication initiation metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process pre-replicative complex assembly nuclear DNA replication cell cycle DNA replication cellular component organization nucleobase-containing compound metabolic process DNA-templated DNA replication DNA replication DNA replication initiation metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process pre-replicative complex assembly nuclear DNA replication cell cycle DNA replication cellular component organization cellular component biogenesis protein-DNA complex organization cellular component assembly protein-containing complex assembly cell cycle cellular component organization or biogenesis cell cycle process pre-replicative complex assembly involved in nuclear cell cycle DNA replication protein-containing complex organization pre-replicative complex assembly involved in cell cycle DNA replication protein-DNA complex assembly regulation of cellular process negative regulation of biological process chromatin organization negative regulation of cellular process chromatin remodeling negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process heterochromatin formation epigenetic regulation of gene expression negative regulation of metabolic process biological regulation heterochromatin organization regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression negative regulation of gene expression constitutive heterochromatin formation biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process silent mating-type cassette heterochromatin formation negative regulation of gene expression, epigenetic regulation of macromolecule biosynthetic process regulation of metabolic process	membrane-bounded organelle DNA replication preinitiation complex protein-containing complex intracellular anatomical structure protein-DNA complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen membrane-bounded organelle DNA replication preinitiation complex protein-containing complex intracellular anatomical structure protein-DNA complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen pre-replicative complex nuclear pre-replicative complex nuclear origin of replication recognition complex intracellular membraneless organelle nuclear chromosome chromosome origin recognition complex membraneless organelle
B	Origin recognition complex subunit 2	DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding double-stranded DNA binding binding nucleic acid binding DNA replication origin binding chromatin binding	nucleobase-containing compound metabolic process DNA-templated DNA replication DNA replication DNA replication initiation metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process subtelomeric heterochromatin formation regulation of cellular process negative regulation of biological process cellular component organization nucleobase-containing compound metabolic process DNA-templated DNA replication DNA replication DNA replication initiation metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process subtelomeric heterochromatin formation regulation of cellular process negative regulation of biological process cellular component organization cellular component biogenesis cellular component assembly chromatin organization negative regulation of cellular process chromatin remodeling cellular component organization or biogenesis negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process heterochromatin formation epigenetic regulation of gene expression negative regulation of metabolic process biological regulation heterochromatin organization regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression negative regulation of gene expression constitutive heterochromatin formation biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of gene expression, epigenetic regulation of macromolecule biosynthetic process regulation of metabolic process pre-replicative complex assembly nuclear DNA replication cell cycle DNA replication protein-DNA complex organization protein-containing complex assembly cell cycle cell cycle process pre-replicative complex assembly involved in nuclear cell cycle DNA replication protein-containing complex organization pre-replicative complex assembly involved in cell cycle DNA replication protein-DNA complex assembly silent mating-type cassette heterochromatin formation	membrane-bounded organelle DNA replication preinitiation complex protein-containing complex intracellular anatomical structure protein-DNA complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen membrane-bounded organelle DNA replication preinitiation complex protein-containing complex intracellular anatomical structure protein-DNA complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen membraneless organelle intracellular membraneless organelle chromosome chromosome, telomeric region chromosomal region pre-replicative complex nuclear pre-replicative complex nuclear origin of replication recognition complex nuclear chromosome origin recognition complex
A	Origin recognition complex subunit 1	DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding double-stranded DNA binding binding nucleic acid binding DNA replication origin binding chromatin binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion 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 chromatin 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 metal ion binding protein-containing complex binding nucleosome binding	cellular response to stimulus regulation of cellular process regulation of cell cycle phase transition response to stimulus signaling G2/M transition of mitotic cell cycle negative regulation of biological process negative regulation of cell cycle cell cycle phase transition intracellular signal transduction mitotic cell cycle negative regulation of mitotic cell cycle cell communication mitotic G2/M transition checkpoint regulation of mitotic cell cycle cellular response to stimulus regulation of cellular process regulation of cell cycle phase transition response to stimulus signaling G2/M transition of mitotic cell cycle negative regulation of biological process negative regulation of cell cycle cell cycle phase transition intracellular signal transduction mitotic cell cycle negative regulation of mitotic cell cycle cell communication mitotic G2/M transition checkpoint regulation of mitotic cell cycle mitotic DNA integrity checkpoint signaling negative regulation of cellular process negative regulation of cell cycle phase transition signal transduction cell cycle DNA replication checkpoint signaling regulation of cell cycle cell cycle process cell cycle G2/M phase transition regulation of biological process mitotic DNA replication checkpoint signaling negative regulation of mitotic cell cycle phase transition regulation of G2/M transition of mitotic cell cycle regulation of cell cycle process biological regulation DNA integrity checkpoint signaling regulation of cell cycle G2/M phase transition negative regulation of cell cycle process cell cycle checkpoint signaling regulation of mitotic cell cycle phase transition mitotic cell cycle checkpoint signaling mitotic cell cycle process negative regulation of cell cycle G2/M phase transition cellular process negative regulation of G2/M transition of mitotic cell cycle mitotic cell cycle phase transition nucleobase-containing compound metabolic process DNA-templated DNA replication DNA replication DNA replication initiation metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process chromosome organization maintenance of DNA repeat elements cellular component organization maintenance of rDNA organelle organization cellular component organization or biogenesis pre-replicative complex assembly nuclear DNA replication cell cycle DNA replication cellular component biogenesis protein-DNA complex organization cellular component assembly protein-containing complex assembly pre-replicative complex assembly involved in nuclear cell cycle DNA replication protein-containing complex organization pre-replicative complex assembly involved in cell cycle DNA replication protein-DNA complex assembly chromatin organization chromatin remodeling negative regulation of macromolecule metabolic process regulation of biosynthetic process heterochromatin formation epigenetic regulation of gene expression negative regulation of metabolic process heterochromatin organization regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression negative regulation of gene expression constitutive heterochromatin formation biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process silent mating-type cassette heterochromatin formation negative regulation of gene expression, epigenetic regulation of macromolecule biosynthetic process regulation of metabolic process nucleosome organization	membrane-bounded organelle DNA replication preinitiation complex protein-containing complex intracellular anatomical structure protein-DNA complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen membrane-bounded organelle DNA replication preinitiation complex protein-containing complex intracellular anatomical structure protein-DNA complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen pre-replicative complex nuclear pre-replicative complex nuclear origin of replication recognition complex intracellular membraneless organelle nuclear chromosome chromosome origin recognition complex membraneless organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
G [auth E]	IPR048866	ORC5, lid domain	Domain
G [auth E]	IPR047088	Origin recognition complex subunit 5, C-terminal	Domain
G [auth E]	IPR041664	Orc1-like, AAA ATPase domain	Domain
G [auth E]	IPR020796	Origin recognition complex, subunit 5	Family
G [auth E]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
D	IPR032705	Origin recognition complex subunit 4, C-terminal	Domain
D	IPR016527	Origin recognition complex subunit 4	Family
D	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
C	IPR020795	Origin recognition complex, subunit 3	Family
C	IPR018247	EF-Hand 1, calcium-binding site	Binding Site
C	IPR040855	Origin recognition complex subunit 3, winged helix C-terminal	Domain
C	IPR045667	Origin recognition complex subunit 3, N-terminal	Domain
B	IPR007220	Origin recognition complex, subunit 2	Family
B	IPR056773	Origin recognition complex subunit 2, winged-helix domain	Domain
B	IPR056772	Origin recognition complex subunit 2, RecA-like domain	Domain
A	IPR041083	AAA lid domain	Domain
A	IPR001025	Bromo adjacent homology (BAH) domain	Domain
A	IPR003593	AAA+ ATPase domain	Domain
A	IPR003959	ATPase, AAA-type, core	Domain
A	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A	IPR043151	Bromo adjacent homology (BAH) domain superfamily	Homologous Superfamily
A	IPR048867	Origin recognition complex subunit 1, C-terminal domain	Domain
A	IPR050311	Origin recognition complex 1/Cell division control protein 6	Family