3EBE | pdb_00003ebe

Crystal structure of xenopus laevis replication initiation factor MCM10 internal domain

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Nucleic acid-binding proteins	8051997	3000135	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Glucocorticoid receptor-like (DNA-binding domain)	8051995	3000068	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Glucocorticoid receptor-like (DNA-binding domain)	8051995	3000068	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Nucleic acid-binding proteins	8051997	3000135	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Nucleic acid-binding proteins	8051997	3000135	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Glucocorticoid receptor-like (DNA-binding domain)	8051995	3000068	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)
A	Peripla_BP_2	e3ebeA1	A: a/b three-layered sandwiches	X: Spectrin repeat-like	H: TIM barrels	T: TIM barrels	F: Peripla_BP_2	ECOD (v294.1)
B	Peripla_BP_2	e3ebeB1	A: a/b three-layered sandwiches	X: Spectrin repeat-like	H: TIM barrels	T: TIM barrels	F: Peripla_BP_2	ECOD (v294.1)
C	MCM10_OB	e3ebeC1	A: a/b three-layered sandwiches	X: Thioredoxin-like	H: Nucleic acid-binding protein	T: Nucleic acid-binding protein	F: MCM10_OB	ECOD (v294.1)
C	zf-primase	e3ebeC2	A: a/b three-layered sandwiches	X: Thioredoxin-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: zf-primase	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.40.50.140	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	Nucleic acid-binding proteins	CATH (4.3.0)
B	2.40.50.140	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	Nucleic acid-binding proteins	CATH (4.3.0)
C	2.40.50.140	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	Nucleic acid-binding proteins	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF22379	MCM10 OB-fold (OB_MCM10)	MCM10 OB-fold	MCM10 is an essential eukaryotic DNA replication protein required for assembly and progression of the replication fork. This entry represents the OB fold domain from the internal domain (ID) [1] which also contains a C3H-type zinc finger (Pfam:PF0932 ...	MCM10 is an essential eukaryotic DNA replication protein required for assembly and progression of the replication fork. This entry represents the OB fold domain from the internal domain (ID) [1] which also contains a C3H-type zinc finger (Pfam:PF09329).	Domain
A, B, C	PF09329	Primase zinc finger (zf-primase)	Primase zinc finger	This zinc finger is found in yeast Mcm10 proteins and DnaG-type primases [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	Protein MCM10 homolog	DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding double-stranded DNA binding binding nucleic acid binding DNA replication origin binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding single-stranded DNA binding	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process 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 cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process 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	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen nuclear replication fork intracellular membraneless organelle nuclear chromosome chromosome intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen nuclear replication fork intracellular membraneless organelle nuclear chromosome chromosome intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle replication fork nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR015408	Zinc finger, Mcm10/DnaG-type	Domain
A, B, C	IPR056791	Mcm10, C-terminal zinc binding motif	Domain
A, B, C	IPR015411	Replication factor Mcm10, C-terminal	Domain
A, B, C	IPR055065	MCM10, OB-fold	Domain
A, B, C	IPR040184	Minichromosome maintenance protein 10	Family
A, B, C	IPR012340	Nucleic acid-binding, OB-fold	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.