5NXQ | pdb_00005nxq

Crystal structure of the carboxy-terminal domain of yeast Ctf4 bound to a stapled Sld5 CIP

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Brix	e5nxqA1	A: alpha bundles	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Brix	ECOD (develop294)
C	Brix	e5nxqC1	A: alpha bundles	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Brix	ECOD (develop294)
B	Brix	e5nxqB1	A: alpha bundles	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Brix	ECOD (develop294)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF12341	Minichromosome loss protein, Mcl1, middle region (Mcl1_mid)	Minichromosome loss protein, Mcl1, middle region	-	Repeat
A, B, C	PF20946	DNA polymerase alpha-binding protein Ctf4, C-terminal domain (Ctf4_C)	DNA polymerase alpha-binding protein Ctf4, C-terminal domain	This domain is found at the C-terminal end of DNA polymerase alpha- binding protein Ctf4 from yeast, its human orthologue AND1, and similar proteins from eukaryotes. This accessory factor for DNA replication plays a role in accurately duplicating the ...	This domain is found at the C-terminal end of DNA polymerase alpha- binding protein Ctf4 from yeast, its human orthologue AND1, and similar proteins from eukaryotes. This accessory factor for DNA replication plays a role in accurately duplicating the genome in vivo. This domain folds into a helical extension that is linked to the beta-propeller domain (Pfam:PF12341) and protrudes from one face of the disk-shaped trimer formed by the protein. It is essential for binding of dynamic partner proteins, such as Pol alpha-primase [1-4].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D, E	MET-ASP-ILE-UA1-ILE-ASP-ASP-ILE-LEU-UA2-GLU-LEU-ASP-LYS-GLU	-	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 cellular response to stimulus double-strand break repair response to stimulus DNA recombination double-strand break repair via break-induced replication 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 cellular response to stimulus double-strand break repair response to stimulus DNA recombination double-strand break repair via break-induced replication cellular response to stress DNA damage response response to stress recombinational repair double-strand break repair via homologous recombination DNA repair	membrane-bounded organelle DNA replication preinitiation complex protein-containing complex intracellular anatomical structure protein-DNA complex nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome intracellular membraneless organelle chromosome intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle membrane-bounded organelle DNA replication preinitiation complex protein-containing complex intracellular anatomical structure protein-DNA complex nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome intracellular membraneless organelle chromosome intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle membraneless organelle CMG complex nuclear lumen GINS complex nuclear replication fork replication fork
A, B, C	DNA polymerase alpha-binding protein	chromatin binding binding identical protein binding protein binding	cellular process cell cycle mitotic cell cycle protein-containing complex organization protein-DNA complex assembly cellular component organization protein-DNA complex organization cellular component biogenesis cellular component assembly chromatin organization protein-containing complex assembly chromatin remodeling cellular component organization or biogenesis nucleosome assembly cellular process cell cycle mitotic cell cycle protein-containing complex organization protein-DNA complex assembly cellular component organization protein-DNA complex organization cellular component biogenesis cellular component assembly chromatin organization protein-containing complex assembly chromatin remodeling cellular component organization or biogenesis nucleosome assembly nucleosome organization 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 cellular response to stimulus response to stimulus cellular response to stress DNA damage response response to stress DNA repair organelle organization mitotic sister chromatid cohesion chromosome organization sister chromatid cohesion cell cycle process double-strand break repair DNA recombination double-strand break repair via break-induced replication recombinational repair double-strand break repair via homologous recombination establishment of sister chromatid cohesion	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen nuclear chromosome intracellular membraneless organelle chromosome intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen nuclear chromosome intracellular membraneless organelle chromosome intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen nuclear replication fork replication fork Cul8-RING ubiquitin ligase complex cullin-RING ubiquitin ligase complex protein-containing complex ubiquitin ligase complex catalytic complex transferase complex intracellular protein-containing complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
D, E	IPR008591	GINS complex subunit Sld5	Family
D, E	IPR038749	GINS complex protein Sld5, alpha-helical domain	Domain
D, E	IPR036224	GINS, helical bundle-like domain superfamily	Homologous Superfamily
D, E	IPR021151	GINS subunit, domain A	Domain
D, E	IPR031633	DNA replication complex GINS protein SLD5, C-terminal	Domain
A, B, C	IPR022100	WDHD1/CFT4, second beta-propeller	Domain
A, B, C	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
A, B, C	IPR048591	WDHD1/CFT4, helical bundle	Domain
A, B, C	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	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.