4F9A | pdb_00004f9a

Human CDC7 kinase in complex with DBF4 and nucleotide

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	Formyl_trans_N	e4f9aD1	A: a/b three-layered sandwiches	X: Fe-S cluster-binding domain in nickel-iron hydrogenase small subunit	H: Fe-S cluster-binding domain in nickel-iron hydrogenase small subunit	T: Fe-S cluster-binding domain in nickel-iron hydrogenase small subunit	F: Formyl_trans_N	ECOD (v294.1)
B	Formyl_trans_N	e4f9aB1	A: a/b three-layered sandwiches	X: Fe-S cluster-binding domain in nickel-iron hydrogenase small subunit	H: Fe-S cluster-binding domain in nickel-iron hydrogenase small subunit	T: Fe-S cluster-binding domain in nickel-iron hydrogenase small subunit	F: Formyl_trans_N	ECOD (v294.1)
C	Flu_NP	e4f9aC2	A: a/b three-layered sandwiches	X: Fusion glycoprotein F2	H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	F: Flu_NP	ECOD (v294.1)
A	Flu_NP	e4f9aA2	A: a/b three-layered sandwiches	X: Fusion glycoprotein F2	H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	F: Flu_NP	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	2.10.50.40	Mainly Beta	Ribbon	Tumor Necrosis Factor Receptor, subunit A	domain 2	CATH (4.3.0)
D	6.10.250.3410	Special	Helix non-globular	Single alpha-helices involved in coiled-coils or other helix-helix interfaces	DBF zinc finger	CATH (4.3.0)
B	2.10.50.40	Mainly Beta	Ribbon	Tumor Necrosis Factor Receptor, subunit A	domain 2	CATH (4.3.0)
B	6.10.250.3410	Special	Helix non-globular	Single alpha-helices involved in coiled-coils or other helix-helix interfaces	DBF zinc finger	CATH (4.3.0)
C	3.30.200.20	Alpha Beta	2-Layer Sandwich	Phosphorylase Kinase	domain 1	CATH (4.3.0)
C	1.10.510.10	Mainly Alpha	Orthogonal Bundle	Transferase(Phosphotransferase)	domain 1	CATH (4.3.0)
A	3.30.200.20	Alpha Beta	2-Layer Sandwich	Phosphorylase Kinase	domain 1	CATH (4.3.0)
A	1.10.510.10	Mainly Alpha	Orthogonal Bundle	Transferase(Phosphotransferase)	domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C	PF00069	Protein kinase domain (Pkinase)	Protein kinase domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, D	Protein DBF4 homolog A	binding nucleic acid binding enzyme regulator activity enzyme activator activity molecular function activator activity molecular function regulator activity cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding protein serine/threonine kinase activator activity kinase activator activity binding nucleic acid binding enzyme regulator activity enzyme activator activity molecular function activator activity molecular function regulator activity cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding protein serine/threonine kinase activator activity kinase activator activity protein kinase activator activity protein kinase regulator activity kinase regulator activity	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process regulation of cellular process positive regulation of DNA replication positive regulation of biological process nuclear DNA replication cell cycle DNA replication regulation of primary metabolic process nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process regulation of cellular process positive regulation of DNA replication positive regulation of biological process nuclear DNA replication cell cycle DNA replication regulation of primary metabolic process positive regulation of metabolic process positive regulation of nuclear cell cycle DNA replication positive regulation of cell cycle process positive regulation of macromolecule metabolic process cell cycle regulation of nucleobase-containing compound metabolic process regulation of cell cycle positive regulation of cellular process cell cycle process DNA-templated DNA replication regulation of biological process regulation of nuclear cell cycle DNA replication regulation of cell cycle process biological regulation regulation of macromolecule metabolic process positive regulation of cell cycle positive regulation of DNA metabolic process regulation of DNA-templated DNA replication positive regulation of DNA-templated DNA replication regulation of metabolic process regulation of DNA replication regulation of DNA metabolic process mitotic cell cycle process cell cycle phase transition G1/S transition of mitotic cell cycle cell cycle G1/S phase transition mitotic cell cycle mitotic cell cycle phase transition regulation of cell cycle phase transition	membrane-bounded organelle protein-containing complex intracellular anatomical structure catalytic complex Dbf4-dependent protein kinase complex nucleus nuclear protein-containing complex intracellular membrane-bounded organelle transferase complex protein kinase complex transferase complex, transferring phosphorus-containing groups intracellular organelle cellular anatomical structure organelle membrane-bounded organelle protein-containing complex intracellular anatomical structure catalytic complex Dbf4-dependent protein kinase complex nucleus nuclear protein-containing complex intracellular membrane-bounded organelle transferase complex protein kinase complex transferase complex, transferring phosphorus-containing groups intracellular organelle cellular anatomical structure organelle serine/threonine protein kinase complex membrane-enclosed lumen intracellular membraneless organelle intracellular organelle lumen nuclear body nucleoplasm organelle lumen membraneless organelle nuclear lumen
A, C	Cell division cycle 7-related protein kinase	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 kinase activity transferase activity catalytic activity transferase activity, transferring phosphorus-containing groups catalytic activity, acting on a protein protein kinase activity phosphotransferase activity, alcohol group as acceptor protein serine/threonine kinase activity cation binding metal ion binding protein serine kinase activity	regulation of biological process cell population proliferation regulation of cellular process positive regulation of cell population proliferation regulation of cell population proliferation biological regulation positive regulation of biological process cellular process positive regulation of cellular process positive regulation of DNA replication nuclear DNA replication cell cycle DNA replication regulation of primary metabolic process nucleobase-containing compound metabolic process regulation of biological process cell population proliferation regulation of cellular process positive regulation of cell population proliferation regulation of cell population proliferation biological regulation positive regulation of biological process cellular process positive regulation of cellular process positive regulation of DNA replication nuclear DNA replication cell cycle DNA replication regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of metabolic process positive regulation of nuclear cell cycle DNA replication positive regulation of cell cycle process positive regulation of macromolecule metabolic process cell cycle regulation of nucleobase-containing compound metabolic process regulation of cell cycle cell cycle process DNA-templated DNA replication regulation of nuclear cell cycle DNA replication regulation of cell cycle process primary metabolic process DNA metabolic process regulation of macromolecule metabolic process nucleic acid metabolic process positive regulation of cell cycle DNA replication positive regulation of DNA metabolic process regulation of DNA-templated DNA replication positive regulation of DNA-templated DNA replication metabolic process macromolecule metabolic process regulation of metabolic process regulation of DNA replication regulation of DNA metabolic process mitotic cell cycle process cell cycle phase transition G1/S transition of mitotic cell cycle cell cycle G1/S phase transition mitotic cell cycle mitotic cell cycle phase transition cell division cellular response to stimulus response to stimulus signaling signal transduction cell communication regulation of cell cycle phase transition G2/M transition of mitotic cell cycle regulation of mitotic cell cycle positive regulation of mitotic cell cycle phase transition positive regulation of mitotic cell cycle cell cycle G2/M phase transition positive regulation of G2/M transition of mitotic cell cycle regulation of G2/M transition of mitotic cell cycle regulation of cell cycle G2/M phase transition positive regulation of cell cycle G2/M phase transition regulation of mitotic cell cycle phase transition positive regulation of cell cycle phase transition double-strand break repair 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	intercellular bridge cellular anatomical structure intracellular anatomical structure cytoplasm intracellular organelle mitotic spindle cytoskeleton spindle organelle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton membrane-bounded organelle nucleus intercellular bridge cellular anatomical structure intracellular anatomical structure cytoplasm intracellular organelle mitotic spindle cytoskeleton spindle organelle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D	IPR051590	DNA Replication Regulatory Kinase Subunit	Family
B, D	IPR006572	Zinc finger, DBF-type	Domain
B, D	IPR038545	DBF-type zinc finger superfamily	Homologous Superfamily
A, C	IPR017441	Protein kinase, ATP binding site	Binding Site
A, C	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
A, C	IPR000719	Protein kinase domain	Domain
A, C	IPR008271	Serine/threonine-protein kinase, active site	Active Site

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B, D	Pharos: Q9UBU7	psoriasis adrenal cortex carcinoma esophageal adenocarcinoma large cell medulloblastoma malignant glioma nasopharyngeal carcinoma ovarian cancer plasma cell myeloma Sjogren syndrome astrocytic tumor glioblastoma lung cancer malignant mesothelioma non-small cell lung carcinoma pancreatic intraductal papillary-mucinous carcinoma psoriasis adrenal cortex carcinoma esophageal adenocarcinoma large cell medulloblastoma malignant glioma nasopharyngeal carcinoma ovarian cancer plasma cell myeloma Sjogren syndrome astrocytic tumor glioblastoma lung cancer malignant mesothelioma non-small cell lung carcinoma pancreatic intraductal papillary-mucinous carcinoma primitive neuroectodermal tumor ductal breast carcinoma in situ invasive ductal breast carcinoma malignant colon neoplasm medulloblastoma oligodendroglioma pancreatic intraductal papillary-mucinous neoplasm
A, C	Pharos: O00311	adrenal cortex carcinoma breast carcinoma interstitial cystitis malignant mesothelioma non-small cell lung carcinoma ovarian cancer rheumatoid arthritis atopic eczema ductal breast carcinoma in situ invasive ductal breast carcinoma medulloblastoma open-angle glaucoma pancreatic intraductal papillary-mucinous carcinoma breast cancer endometriosis adrenal cortex carcinoma breast carcinoma interstitial cystitis malignant mesothelioma non-small cell lung carcinoma ovarian cancer rheumatoid arthritis atopic eczema ductal breast carcinoma in situ invasive ductal breast carcinoma medulloblastoma open-angle glaucoma pancreatic intraductal papillary-mucinous carcinoma breast cancer endometriosis lung cancer nasopharyngeal carcinoma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm

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.