1XE0

The structure and function of Xenopus NO38-core, a histone binding chaperone in the nucleolus

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1xe0a1	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Nucleoplasmin-like core domain	Nucleoplasmin-like core domain	Nucleophosmin (NO38)	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
A	d1xe0a2	Artifacts	Tags	Tags	Tags	N-terminal Tags	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
B	d1xe0b1	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Nucleoplasmin-like core domain	Nucleoplasmin-like core domain	Nucleophosmin (NO38)	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
B	d1xe0b2	Artifacts	Tags	Tags	Tags	N-terminal Tags	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
C	d1xe0c_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Nucleoplasmin-like core domain	Nucleoplasmin-like core domain	Nucleophosmin (NO38)	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
D	d1xe0d1	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Nucleoplasmin-like core domain	Nucleoplasmin-like core domain	Nucleophosmin (NO38)	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
D	d1xe0d2	Artifacts	Tags	Tags	Tags	N-terminal Tags	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
E	d1xe0e1	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Nucleoplasmin-like core domain	Nucleoplasmin-like core domain	Nucleophosmin (NO38)	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
E	d1xe0e2	Artifacts	Tags	Tags	Tags	N-terminal Tags	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
F	d1xe0f1	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Nucleoplasmin-like core domain	Nucleoplasmin-like core domain	Nucleophosmin (NO38)	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
F	d1xe0f2	Artifacts	Tags	Tags	Tags	N-terminal Tags	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
G	d1xe0g1	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Nucleoplasmin-like core domain	Nucleoplasmin-like core domain	Nucleophosmin (NO38)	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
G	d1xe0g2	Artifacts	Tags	Tags	Tags	N-terminal Tags	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
H	d1xe0h1	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Nucleoplasmin-like core domain	Nucleoplasmin-like core domain	Nucleophosmin (NO38)	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
H	d1xe0h2	Artifacts	Tags	Tags	Tags	N-terminal Tags	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
I	d1xe0i1	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Nucleoplasmin-like core domain	Nucleoplasmin-like core domain	Nucleophosmin (NO38)	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
I	d1xe0i2	Artifacts	Tags	Tags	Tags	N-terminal Tags	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
J	d1xe0j1	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Nucleoplasmin-like core domain	Nucleoplasmin-like core domain	Nucleophosmin (NO38)	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)
J	d1xe0j2	Artifacts	Tags	Tags	Tags	N-terminal Tags	African clawed frog (Xenopus laevis ) [TaxId: 8355 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Nucleoplasmin-like core domain	8031471	4003012	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Nucleoplasmin-like core domain	8043849	3002011	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Nucleoplasmin-like core domain	8043849	3002011	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Nucleoplasmin-like core domain	8043849	3002011	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Nucleoplasmin-like core domain	8043849	3002011	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Nucleoplasmin-like core domain	8043849	3002011	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Nucleoplasmin-like core domain	8043849	3002011	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Nucleoplasmin-like core domain	8043849	3002011	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Nucleoplasmin-like core domain	8043849	3002011	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Nucleoplasmin-like core domain	8043849	3002011	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Nucleoplasmin-like core domain	8043849	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	PF03066	e1xe0A1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: PF03066	ECOD (1.6)
B	PF03066	e1xe0B1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: PF03066	ECOD (1.6)
C	PF03066	e1xe0C1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: PF03066	ECOD (1.6)
D	PF03066	e1xe0D1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: PF03066	ECOD (1.6)
E	PF03066	e1xe0E1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: PF03066	ECOD (1.6)
F	PF03066	e1xe0F1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: PF03066	ECOD (1.6)
G	PF03066	e1xe0G1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: PF03066	ECOD (1.6)
H	PF03066	e1xe0H1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: PF03066	ECOD (1.6)
I	PF03066	e1xe0I1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: PF03066	ECOD (1.6)
J	PF03066	e1xe0J1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: PF03066	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.120.340	Mainly Beta	Sandwich	Jelly Rolls	Nucleoplasmin core domain	CATH (4.3.0)
B	2.60.120.340	Mainly Beta	Sandwich	Jelly Rolls	Nucleoplasmin core domain	CATH (4.3.0)
C	2.60.120.340	Mainly Beta	Sandwich	Jelly Rolls	Nucleoplasmin core domain	CATH (4.3.0)
D	2.60.120.340	Mainly Beta	Sandwich	Jelly Rolls	Nucleoplasmin core domain	CATH (4.3.0)
E	2.60.120.340	Mainly Beta	Sandwich	Jelly Rolls	Nucleoplasmin core domain	CATH (4.3.0)
F	2.60.120.340	Mainly Beta	Sandwich	Jelly Rolls	Nucleoplasmin core domain	CATH (4.3.0)
G	2.60.120.340	Mainly Beta	Sandwich	Jelly Rolls	Nucleoplasmin core domain	CATH (4.3.0)
H	2.60.120.340	Mainly Beta	Sandwich	Jelly Rolls	Nucleoplasmin core domain	CATH (4.3.0)
I	2.60.120.340	Mainly Beta	Sandwich	Jelly Rolls	Nucleoplasmin core domain	CATH (4.3.0)
J	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, B, C, D, E A, B, C, D, E, F, G, H, I, J	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, B, C, D, E A, B, C, D, E, F, G, H, I, J	Nucleophosmin	RNA binding binding organic cyclic compound binding nucleic acid binding identical protein binding protein binding	regulation of biological process regulation of catalytic activity biological regulation primary metabolic process regulation of macromolecule metabolic process DNA metabolic process nucleic acid metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process regulation of molecular function organic cyclic compound metabolic process regulation of endodeoxyribonuclease activity organic substance metabolic process regulation of hydrolase activity regulation of deoxyribonuclease activity regulation of biological process regulation of catalytic activity biological regulation primary metabolic process regulation of macromolecule metabolic process DNA metabolic process nucleic acid metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process regulation of molecular function organic cyclic compound metabolic process regulation of endodeoxyribonuclease activity organic substance metabolic process regulation of hydrolase activity regulation of deoxyribonuclease activity regulation of nuclease activity metabolic process macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of metabolic process regulation of DNA metabolic process cellular response to stimulus response to stimulus cellular response to stress DNA damage response response to stress cellular process DNA repair regulation of ribonuclease activity RNA metabolic process regulation of endoribonuclease activity regulation of RNA metabolic process	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle cytoplasm nucleoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	IPR032569	Nucleophosmin, C-terminal	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	IPR004301	Nucleoplasmin family	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	IPR024057	Nucleoplasmin core domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	IPR036824	Nucleoplasmin core 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 R01GM133198.