4BPX

Crystal structure of human primase in complex with the primase- binding motif of DNA polymerase alpha

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)
A	KOG2851_1	e4bpxA2	A: alpha arrays	X: Insert all-alpha domain in prim-pol (From Topology)	H: Insert all-alpha domain in prim-pol (From Topology)	T: Insert all-alpha domain in prim-pol	F: KOG2851_1	ECOD (1.6)
A	DNA_primase_S	e4bpxA1	A: a+b complex topology	X: Prim-pol domain (From Topology)	H: Prim-pol domain (From Topology)	T: Prim-pol domain	F: DNA_primase_S	ECOD (1.6)
C	KOG2851_1	e4bpxC2	A: alpha arrays	X: Insert all-alpha domain in prim-pol (From Topology)	H: Insert all-alpha domain in prim-pol (From Topology)	T: Insert all-alpha domain in prim-pol	F: KOG2851_1	ECOD (1.6)
C	DNA_primase_S	e4bpxC1	A: a+b complex topology	X: Prim-pol domain (From Topology)	H: Prim-pol domain (From Topology)	T: Prim-pol domain	F: DNA_primase_S	ECOD (1.6)
B	DNA_primase_lrg_N	e4bpxB1	A: alpha complex topology	X: PriB N-terminal domain-like (From Topology)	H: PriB N-terminal domain-like (From Topology)	T: PriB N-terminal domain-like	F: DNA_primase_lrg_N	ECOD (1.6)
D	DNA_primase_lrg_N	e4bpxD1	A: alpha complex topology	X: PriB N-terminal domain-like (From Topology)	H: PriB N-terminal domain-like (From Topology)	T: PriB N-terminal domain-like	F: DNA_primase_lrg_N	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.90.920.10	Alpha Beta	Alpha-Beta Complex	DNA primase, PRIM domain	DNA primase, PRIM domain	CATH (4.3.0)
C	3.90.920.10	Alpha Beta	Alpha-Beta Complex	DNA primase, PRIM domain	DNA primase, PRIM domain	CATH (4.3.0)
B	1.20.930.80	Mainly Alpha	Up-down Bundle	Transcription Elongation Factor S-II	Chain A	CATH (4.3.0)
D	1.20.930.80	Mainly Alpha	Up-down Bundle	Transcription Elongation Factor S-II	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C	PF01896	DNA primase small subunit (DNA_primase_S)	DNA primase small subunit	-	Family
B, D	PF04104	Eukaryotic and archaeal DNA primase, large subunit (DNA_primase_lrg)	Eukaryotic and archaeal DNA primase, large subunit	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C	DNA PRIMASE SMALL SUBUNIT	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding nucleoside phosphate binding organic cyclic compound binding nucleotide binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding DNA-directed 5'-3' RNA polymerase activity DNA primase activity cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding nucleoside phosphate binding organic cyclic compound binding nucleotide binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding DNA-directed 5'-3' RNA polymerase activity DNA primase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups transition metal ion binding zinc ion binding	DNA-templated DNA replication DNA replication initiation primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA replication organic substance metabolic process metabolic process macromolecule metabolic process cellular biosynthetic process DNA replication, synthesis of primer cellular metabolic process DNA-templated DNA replication DNA replication initiation primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA replication organic substance metabolic process metabolic process macromolecule metabolic process cellular biosynthetic process DNA replication, synthesis of primer cellular metabolic process RNA metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process RNA biosynthetic process nucleic acid biosynthetic process biosynthetic process organic cyclic compound biosynthetic process organic substance biosynthetic process cellular process	membrane-bounded organelle protein-containing complex alpha DNA polymerase:primase complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome chromosome transferase complex intracellular organelle lumen intracellular organelle nuclear replisome replication fork membrane-bounded organelle protein-containing complex alpha DNA polymerase:primase complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome chromosome transferase complex intracellular organelle lumen intracellular organelle nuclear replisome replication fork non-membrane-bounded organelle catalytic complex protein-DNA complex nuclear replication fork intracellular membrane-bounded organelle cellular anatomical entity DNA polymerase complex transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen organelle RNA polymerase complex intracellular non-membrane-bounded organelle DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen replisome membrane nucleoplasm
B, D	DNA POLYMERASE ALPHA CATALYTIC SUBUNIT, DNA PRIMASE LARGE SUBUNIT	DNA binding binding organic cyclic compound binding nucleic acid binding iron-sulfur cluster binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding cation binding ion binding metal ion binding DNA/RNA hybrid binding	DNA-templated DNA replication DNA replication initiation primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA replication organic substance metabolic process metabolic process macromolecule metabolic process regulation of cellular process regulation of catalytic activity regulation of transferase activity DNA-templated DNA replication DNA replication initiation primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA replication organic substance metabolic process metabolic process macromolecule metabolic process regulation of cellular process regulation of catalytic activity regulation of transferase activity positive regulation of macromolecule biosynthetic process regulation of primary metabolic process positive regulation of metabolic process regulation of RNA metabolic process organic substance biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological process positive regulation of nucleobase-containing compound metabolic process cellular metabolic process regulation of cellular metabolic process positive regulation of RNA metabolic process regulation of molecular function biosynthetic process positive regulation of DNA metabolic process organic cyclic compound biosynthetic process regulation of macromolecule biosynthetic process regulation of metabolic process regulation of DNA metabolic process cellular biosynthetic process positive regulation of biological process RNA metabolic process positive regulation of cellular metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of molecular function positive regulation of biosynthetic process regulation of DNA primase activity positive regulation of cellular process regulation of RNA biosynthetic process regulation of biosynthetic process positive regulation of transferase activity biological regulation positive regulation of catalytic activity regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process regulation of cellular biosynthetic process positive regulation of RNA biosynthetic process cellular process positive regulation of DNA primase activity positive regulation of cellular biosynthetic process DNA replication, synthesis of primer	membrane-bounded organelle protein-containing complex alpha DNA polymerase:primase complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome chromosome transferase complex intracellular organelle lumen intracellular organelle nuclear replisome replication fork membrane-bounded organelle protein-containing complex alpha DNA polymerase:primase complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome chromosome transferase complex intracellular organelle lumen intracellular organelle nuclear replisome replication fork non-membrane-bounded organelle catalytic complex protein-DNA complex nuclear replication fork intracellular membrane-bounded organelle cellular anatomical entity DNA polymerase complex transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen organelle RNA polymerase complex intracellular non-membrane-bounded organelle DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen replisome nucleoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C	IPR002755	DNA primase, small subunit	Family
A, C	IPR014052	DNA primase, small subunit, eukaryotic/archaeal	Family
B, D	IPR016558	DNA primase, large subunit, eukaryotic	Family
B, D	IPR007238	DNA primase large subunit, eukaryotic/archaeal	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, C	Pharos: P49642	adrenal cortex carcinoma large cell medulloblastoma malignant colon neoplasm medulloblastoma Sjogren syndrome atrial fibrillation lung cancer malignant glioma non-small cell lung carcinoma glioblastoma lymphoplasmacytic lymphoma malignant mesothelioma primitive neuroectodermal tumor
B, D	Pharos: P49643	atypical teratoid rhabdoid tumor heart disease lung cancer medulloblastoma primitive neuroectodermal tumor Gaucher disease large cell medulloblastoma malignant ependymoma non-small cell lung carcinoma psoriasis glioblastoma lung adenocarcinoma malignant glioma osteosarcoma

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.