3T30 | pdb_00003t30

Human nucleoplasmin (Npm2): a histone chaperone in oocytes and early embryos

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
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A [auth B]	d3t30b_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Nucleoplasmin-like core domain	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B [auth E]	d3t30e_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Nucleoplasmin-like core domain	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth D]	d3t30d_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Nucleoplasmin-like core domain	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D [auth A]	d3t30a_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Nucleoplasmin-like core domain	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
I [auth F]	d3t30f_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Nucleoplasmin-like core domain	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
J [auth G]	d3t30g_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Nucleoplasmin-like core domain	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
H [auth J]	d3t30j_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Nucleoplasmin-like core domain	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
G [auth I]	d3t30i_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Nucleoplasmin-like core domain	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
F [auth H]	d3t30h_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Nucleoplasmin-like core domain	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
E [auth C]	d3t30c_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Nucleoplasmin-like core domain	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth B]	SCOP2B Superfamily	Nucleoplasmin-like core domain	8072505	3002011	SCOP2B (2022-06-29)
B [auth E]	SCOP2B Superfamily	Nucleoplasmin-like core domain	8072505	3002011	SCOP2B (2022-06-29)
C [auth D]	SCOP2B Superfamily	Nucleoplasmin-like core domain	8072505	3002011	SCOP2B (2022-06-29)
D [auth A]	SCOP2B Superfamily	Nucleoplasmin-like core domain	8072505	3002011	SCOP2B (2022-06-29)
I [auth F]	SCOP2B Superfamily	Nucleoplasmin-like core domain	8072505	3002011	SCOP2B (2022-06-29)
J [auth G]	SCOP2 Family	Nucleoplasmin-like core domain	8072504	4003012	SCOP2 (2022-06-29)
J [auth G]	SCOP2 Superfamily	Nucleoplasmin-like core domain	8072505	3002011	SCOP2 (2022-06-29)
H [auth J]	SCOP2B Superfamily	Nucleoplasmin-like core domain	8072505	3002011	SCOP2B (2022-06-29)
G [auth I]	SCOP2B Superfamily	Nucleoplasmin-like core domain	8072505	3002011	SCOP2B (2022-06-29)
F [auth H]	SCOP2B Superfamily	Nucleoplasmin-like core domain	8072505	3002011	SCOP2B (2022-06-29)
E [auth C]	SCOP2B Superfamily	Nucleoplasmin-like core domain	8072505	3002011	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 [auth B]	Glyco_hydro_36C	e3t30B1	A: a/b three-layered sandwiches	X: Cystatin-like	H: Cystatin/monellin	T: Cystatin/monellin	F: Glyco_hydro_36C	ECOD (v294.1)
B [auth E]	Ion_trans_2	e3t30E1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Ion_trans_2	ECOD (v294.1)
C [auth D]	Ion_trans_2	e3t30D1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Ion_trans_2	ECOD (v294.1)
D [auth A]	Ion_trans_2	e3t30A1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Ion_trans_2	ECOD (v294.1)
I [auth F]	Ion_trans_2	e3t30F1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Ion_trans_2	ECOD (v294.1)
J [auth G]	Ion_trans_2	e3t30G1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Ion_trans_2	ECOD (v294.1)
H [auth J]	Ion_trans_2	e3t30J1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Ion_trans_2	ECOD (v294.1)
G [auth I]	Ion_trans_2	e3t30I1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Ion_trans_2	ECOD (v294.1)
F [auth H]	Ion_trans_2	e3t30H1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Ion_trans_2	ECOD (v294.1)
E [auth C]	Ion_trans_2	e3t30C1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Ion_trans_2	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth B]	2.60.120.340	Mainly Beta	Sandwich	Jelly Rolls	Nucleoplasmin core domain	CATH (4.3.0)
B [auth E]	2.60.120.340	Mainly Beta	Sandwich	Jelly Rolls	Nucleoplasmin core domain	CATH (4.3.0)
C [auth D]	2.60.120.340	Mainly Beta	Sandwich	Jelly Rolls	Nucleoplasmin core domain	CATH (4.3.0)
D [auth A]	2.60.120.340	Mainly Beta	Sandwich	Jelly Rolls	Nucleoplasmin core domain	CATH (4.3.0)
I [auth F]	2.60.120.340	Mainly Beta	Sandwich	Jelly Rolls	Nucleoplasmin core domain	CATH (4.3.0)
J [auth G]	2.60.120.340	Mainly Beta	Sandwich	Jelly Rolls	Nucleoplasmin core domain	CATH (4.3.0)
H [auth J]	2.60.120.340	Mainly Beta	Sandwich	Jelly Rolls	Nucleoplasmin core domain	CATH (4.3.0)
G [auth I]	2.60.120.340	Mainly Beta	Sandwich	Jelly Rolls	Nucleoplasmin core domain	CATH (4.3.0)
F [auth H]	2.60.120.340	Mainly Beta	Sandwich	Jelly Rolls	Nucleoplasmin core domain	CATH (4.3.0)
E [auth C]	2.60.120.340	Mainly Beta	Sandwich	Jelly Rolls	Nucleoplasmin core domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth B], B [auth E], C [auth D], D [auth A], E [auth C], A [auth B], B [auth E], C [auth D], D [auth A], E [auth C], F [auth H], G [auth I], H [auth J], I [auth F], J [auth G]	PF03066	Nucleoplasmin/nucleophosmin domain (Nucleoplasmin)	Nucleoplasmin/nucleophosmin domain	Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth B], B [auth E], C [auth D], D [auth A], E [auth C], A [auth B], B [auth E], C [auth D], D [auth A], E [auth C], F [auth H], G [auth I], H [auth J], I [auth F], J [auth G]	Nucleoplasmin-2	protein binding binding histone binding chromatin binding RNA binding nucleic acid binding enzyme binding identical protein binding	regulation of cell cycle phase transition regulation of cellular process cell cycle phase transition exit from mitosis mitotic cell cycle cellular component organization regulation of mitotic cell cycle cell cycle cellular component organization or biogenesis regulation of cell cycle cell cycle process regulation of biological process mitotic nuclear division regulation of cell cycle process regulation of cell cycle phase transition regulation of cellular process cell cycle phase transition exit from mitosis mitotic cell cycle cellular component organization regulation of mitotic cell cycle cell cycle cellular component organization or biogenesis regulation of cell cycle cell cycle process regulation of biological process mitotic nuclear division regulation of cell cycle process organelle fission biological regulation regulation of mitotic cell cycle phase transition nuclear division organelle organization mitotic cell cycle process cellular process regulation of exit from mitosis mitotic cell cycle phase transition developmental process sexual reproduction cellular developmental process reproductive process oogenesis multicellular organismal reproductive process cell development cellular process involved in reproduction in multicellular organism developmental process involved in reproduction female gamete generation gamete generation cell differentiation anatomical structure development germ cell development oocyte differentiation positive regulation of DNA replication positive regulation of biological process regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of metabolic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of cellular process primary metabolic process DNA metabolic process regulation of macromolecule metabolic process nucleic acid metabolic process DNA replication positive regulation of DNA metabolic process metabolic process macromolecule metabolic process regulation of metabolic process regulation of DNA metabolic process regulation of DNA replication fertilization single fertilization multicellular organism development multicellular organismal process embryo development ending in birth or egg hatching chordate embryonic development embryo development in utero embryonic development blastocyst development positive regulation of organelle organization regulation of cellular component organization positive regulation of cellular component organization regulation of reproductive process meiotic cell cycle process positive regulation of cell cycle process meiotic nuclear division positive regulation of reproductive process regulation of meiotic cell cycle meiotic cell cycle positive regulation of nuclear division positive regulation of meiotic cell cycle regulation of organelle organization positive regulation of cell cycle regulation of meiotic nuclear division regulation of nuclear division positive regulation of meiotic nuclear division chromatin organization chromatin remodeling	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen cytoplasm nucleoplasm chromatin chromosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth B], B [auth E], C [auth D], D [auth A], E [auth C], A [auth B], B [auth E], C [auth D], D [auth A], E [auth C], F [auth H], G [auth I], H [auth J], I [auth F], J [auth G]	IPR004301	Nucleoplasmin family	Family
A [auth B], B [auth E], C [auth D], D [auth A], E [auth C], A [auth B], B [auth E], C [auth D], D [auth A], E [auth C], F [auth H], G [auth I], H [auth J], I [auth F], J [auth G]	IPR024057	Nucleoplasmin core domain	Domain
A [auth B], B [auth E], C [auth D], D [auth A], E [auth C], A [auth B], B [auth E], C [auth D], D [auth A], E [auth C], F [auth H], G [auth I], H [auth J], I [auth F], J [auth G]	IPR036824	Nucleoplasmin core domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A [auth B], B [auth E], C [auth D], D [auth A], E [auth C], A [auth B], B [auth E], C [auth D], D [auth A], E [auth C], F [auth H], G [auth I], H [auth J], I [auth F], J [auth G]	Pharos: Q86SE8	atrial fibrillation large cell medulloblastoma medulloblastoma primitive neuroectodermal tumor atypical teratoid rhabdoid tumor malignant ependymoma oligodendroglioma glioblastoma malignant glioma pilocytic astrocytoma

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.