2ZXX

Crystal structure of Cdt1/geminin complex

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	d2zxxa_	Coiled coil proteins	Parallel coiled-coil	Geminin coiled-coil domain	Geminin coiled-coil domain	Geminin coiled-coil domain	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d2zxxb_	Coiled coil proteins	Parallel coiled-coil	Geminin coiled-coil domain	Geminin coiled-coil domain	Geminin coiled-coil domain	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
D	d2zxxd_	Coiled coil proteins	Parallel coiled-coil	Geminin coiled-coil domain	Geminin coiled-coil domain	Geminin coiled-coil domain	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
E	d2zxxe_	Coiled coil proteins	Parallel coiled-coil	Geminin coiled-coil domain	Geminin coiled-coil domain	Geminin coiled-coil domain	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C	d2zxxc_	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	DNA replication factor Cdt1	DNA replication factor Cdt1	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
F	d2zxxf_	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	DNA replication factor Cdt1	DNA replication factor Cdt1	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Geminin coiled-coil domain	8029386	4003113	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Geminin coiled-coil domain	8041765	3000277	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Geminin coiled-coil domain	8041765	3000277	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Geminin coiled-coil domain	8041765	3000277	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Geminin coiled-coil domain	8041765	3000277	SCOP2B (2022-06-29)
C	SCOP2 Family	Cdt1 geminin-binding domain	8002848	4000165	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	Winged helix DNA-binding domain	8002849	3000034	SCOP2 (2022-06-29)
F	SCOP2B Superfamily	Winged helix DNA-binding domain	8002849	3000034	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)
C	CDT1	e2zxxC1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: CDT1	ECOD (1.6)
F	CDT1	e2zxxF1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: CDT1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.20.5.1180	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces	Geminin coiled-coil domain	CATH (4.3.0)
B	1.20.5.1180	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces	Geminin coiled-coil domain	CATH (4.3.0)
D	1.20.5.1180	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces	Geminin coiled-coil domain	CATH (4.3.0)
E	1.20.5.1180	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces	Geminin coiled-coil domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, D, E	PF07412	Geminin (Geminin)	Geminin	-	Family
C, F	PF08839	DNA replication factor CDT1 like (CDT1)	DNA replication factor CDT1 like	CDT1 is a component of the replication licensing system and promotes the loading of the mini-chromosome maintenance complex onto chromatin. Geminin is an inhibitor of CDT1 and prevents inappropriate re-initiation of replication on an already fired o ...	CDT1 is a component of the replication licensing system and promotes the loading of the mini-chromosome maintenance complex onto chromatin. Geminin is an inhibitor of CDT1 and prevents inappropriate re-initiation of replication on an already fired origin. This region of CDT1 binds to Geminin [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, D, E	Geminin	transcription corepressor activity transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity transcription factor binding protein binding binding DNA-binding transcription factor binding histone deacetylase binding enzyme binding chromatin binding	DNA-templated DNA replication protein-containing complex organization DNA replication preinitiation complex assembly nuclear DNA replication cell cycle DNA replication primary metabolic process protein-DNA complex assembly DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process cellular component organization cellular component biogenesis protein-DNA complex organization DNA replication cellular component assembly DNA-templated DNA replication protein-containing complex organization DNA replication preinitiation complex assembly nuclear DNA replication cell cycle DNA replication primary metabolic process protein-DNA complex assembly DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process cellular component organization cellular component biogenesis protein-DNA complex organization DNA replication cellular component assembly protein-containing complex assembly metabolic process cellular process macromolecule metabolic process cell cycle cellular component organization or biogenesis cell cycle process regulation of cellular process cellular biosynthetic process negative regulation of biological process RNA metabolic process negative regulation of cellular metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of DNA-templated transcription regulation of biological process cellular metabolic process negative regulation of metabolic process biological regulation regulation of cellular metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process negative regulation of cellular biosynthetic process regulation of cellular biosynthetic process regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process regulation of mitotic cell cycle regulation of cell cycle mitotic cell cycle developmental process anatomical structure morphogenesis animal organ development anatomical structure development animal organ morphogenesis negative regulation of cell cycle negative regulation of DNA-templated DNA replication negative regulation of DNA replication regulation of DNA-templated DNA replication negative regulation of DNA metabolic process regulation of DNA metabolic process regulation of DNA replication regulation of DNA-templated DNA replication initiation DNA replication initiation	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol protein-containing complex transcription regulator complex transcription repressor complex membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm intracellular anatomical structure cytoplasm cellular anatomical entity cytosol protein-containing complex transcription regulator complex transcription repressor complex membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen
C, F	DNA replication factor Cdt1	DNA binding binding organic cyclic compound binding nucleic acid binding chromatin binding protein binding DNA polymerase binding enzyme binding	DNA-templated DNA replication protein-containing complex organization DNA replication preinitiation complex assembly nuclear DNA replication cell cycle DNA replication primary metabolic process protein-DNA complex assembly DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process cellular component organization cellular component biogenesis protein-DNA complex organization DNA replication cellular component assembly DNA-templated DNA replication protein-containing complex organization DNA replication preinitiation complex assembly nuclear DNA replication cell cycle DNA replication primary metabolic process protein-DNA complex assembly DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process cellular component organization cellular component biogenesis protein-DNA complex organization DNA replication cellular component assembly protein-containing complex assembly metabolic process cellular process macromolecule metabolic process cell cycle cellular component organization or biogenesis cell cycle process mitotic cell cycle regulation of cellular process regulation of primary metabolic process regulation of nucleobase-containing compound metabolic process regulation of cell cycle regulation of biological process regulation of nuclear cell cycle DNA replication regulation of cell cycle process biological regulation regulation of macromolecule metabolic process regulation of DNA-templated DNA replication regulation of metabolic process regulation of DNA replication regulation of DNA metabolic process cellular response to stimulus regulation of cell cycle phase transition response to stimulus signaling negative regulation of biological process negative regulation of cell cycle cell cycle phase transition intracellular signal transduction cell communication negative regulation of cellular process negative regulation of cell cycle phase transition signal transduction DNA replication checkpoint signaling DNA integrity checkpoint signaling negative regulation of cell cycle process cell cycle checkpoint signaling establishment of organelle localization cellular localization mitotic metaphase chromosome alignment metaphase chromosome alignment localization chromosome localization organelle localization establishment of localization in cell mitotic sister chromatid segregation chromosome segregation mitotic nuclear division attachment of spindle microtubules to kinetochore organelle fission attachment of mitotic spindle microtubules to kinetochore chromosome organization sister chromatid segregation establishment of localization organelle organization nuclear division mitotic cell cycle process nuclear chromosome segregation establishment of chromosome localization negative regulation of DNA-templated DNA replication negative regulation of nucleobase-containing compound metabolic process negative regulation of macromolecule metabolic process negative regulation of DNA replication negative regulation of metabolic process negative regulation of DNA metabolic process response to carbohydrate response to chemical response to sorbitol response to oxygen-containing compound positive regulation of DNA replication positive regulation of biological process positive regulation of metabolic process positive regulation of macromolecule metabolic process positive regulation of nucleobase-containing compound metabolic process positive regulation of DNA metabolic process positive regulation of DNA-templated DNA replication regulation of DNA-templated DNA replication initiation DNA replication initiation	intracellular anatomical structure chromosome cellular anatomical entity chromosomal region kinetochore intracellular organelle organelle intracellular non-membrane-bounded organelle chromosome, centromeric region condensed chromosome, centromeric region supramolecular complex condensed chromosome non-membrane-bounded organelle membrane-bounded organelle intracellular anatomical structure chromosome cellular anatomical entity chromosomal region kinetochore intracellular organelle organelle intracellular non-membrane-bounded organelle chromosome, centromeric region condensed chromosome, centromeric region supramolecular complex condensed chromosome non-membrane-bounded organelle membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nuclear body nucleoplasm organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, D, E	IPR022786	Geminin/Multicilin	Family
C, F	IPR038090	DNA replication factor Cdt1, C-terminal WH domain superfamily	Homologous Superfamily
C, F	IPR014939	CDT1 Geminin-binding domain-like	Domain
C, F	IPR036390	Winged helix DNA-binding domain superfamily	Homologous Superfamily
C, F	IPR032054	DNA replication factor Cdt1, C-terminal	Domain
C, F	IPR045173	DNA replication factor Cdt1	Family

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.