1KO6

Crystal Structure of C-terminal Autoproteolytic Domain of Nucleoporin Nup98

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 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	d1ko6.1	All beta proteins	C-terminal autoproteolytic domain of nucleoporin nup98	C-terminal autoproteolytic domain of nucleoporin nup98	C-terminal autoproteolytic domain of nucleoporin nup98	C-terminal autoproteolytic domain of nucleoporin nup98	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d1ko6.2	All beta proteins	C-terminal autoproteolytic domain of nucleoporin nup98	C-terminal autoproteolytic domain of nucleoporin nup98	C-terminal autoproteolytic domain of nucleoporin nup98	C-terminal autoproteolytic domain of nucleoporin nup98	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d1ko6.1	All beta proteins	C-terminal autoproteolytic domain of nucleoporin nup98	C-terminal autoproteolytic domain of nucleoporin nup98	C-terminal autoproteolytic domain of nucleoporin nup98	C-terminal autoproteolytic domain of nucleoporin nup98	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d1ko6.2	All beta proteins	C-terminal autoproteolytic domain of nucleoporin nup98	C-terminal autoproteolytic domain of nucleoporin nup98	C-terminal autoproteolytic domain of nucleoporin nup98	C-terminal autoproteolytic domain of nucleoporin nup98	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	SCOP2B Superfamily	ZU5 domain-like	8091407	3002026	SCOP2B (2021-05-27)
C	SCOP2B Superfamily	ZU5 domain-like	8091407	3002026	SCOP2B (2021-05-27)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.1610.10	Alpha Beta	2-Layer Sandwich	c-terminal autoproteolytic domain of nucleoporin nup98	Peptidase S59, nucleoporin	CATH (4.3.0)
C	3.30.1610.10	Alpha Beta	2-Layer Sandwich	c-terminal autoproteolytic domain of nucleoporin nup98	Peptidase S59, nucleoporin	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C	PF04096	Nucleoporin autopeptidase (Nucleoporin2)	Nucleoporin autopeptidase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C	Nuclear Pore Complex Protein Nup98	molecular condensate scaffold activity protein-macromolecule adaptor activity molecular adaptor activity transcription coactivator activity transcription regulator activity transcription coregulator activity peptidase activity serine hydrolase activity catalytic activity, acting on a protein serine-type peptidase activity hydrolase activity catalytic activity RNA binding binding molecular condensate scaffold activity protein-macromolecule adaptor activity molecular adaptor activity transcription coactivator activity transcription regulator activity transcription coregulator activity peptidase activity serine hydrolase activity catalytic activity, acting on a protein serine-type peptidase activity hydrolase activity catalytic activity RNA binding binding organic cyclic compound binding nucleic acid binding nuclear localization sequence binding signal sequence binding peptide binding protein-containing complex binding chromatin binding promoter-specific chromatin binding mRNA binding structural molecule activity structural constituent of nuclear pore	cellular component organization nucleus organization organelle organization nuclear pore organization protein-containing complex organization cellular process cellular component organization or biogenesis localization telomere localization telomere tethering at nuclear periphery chromosome localization organelle localization RNA transport nitrogen compound transport cellular component organization nucleus organization organelle organization nuclear pore organization protein-containing complex organization cellular process cellular component organization or biogenesis localization telomere localization telomere tethering at nuclear periphery chromosome localization organelle localization RNA transport nitrogen compound transport transport nucleic acid transport mRNA transport establishment of localization establishment of RNA localization macromolecule localization RNA localization nucleobase-containing compound transport cellular localization nucleocytoplasmic transport nuclear transport establishment of localization in cell intracellular transport protein localization establishment of protein localization protein localization to nucleus import into nucleus establishment of protein localization to organelle protein transport cellular macromolecule localization protein localization to organelle protein import into nucleus intracellular protein transport RNA export from nucleus nuclear export chromosome organization transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery post-transcriptional tethering of RNA polymerase II gene DNA at nuclear periphery pore complex assembly cellular component biogenesis nuclear pore complex assembly cellular component assembly protein-containing complex assembly organonitrogen compound metabolic process proteolysis metabolic process primary metabolic process protein metabolic process macromolecule metabolic process regulation of cellular process regulation of mRNA splicing, via spliceosome mRNA processing positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of metabolic process regulation of RNA metabolic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process RNA processing regulation of biological process positive regulation of nucleobase-containing compound metabolic process cellular metabolic process positive regulation of mRNA metabolic process regulation of cellular metabolic process positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of mRNA processing regulation of macromolecule biosynthetic process regulation of metabolic process positive regulation of mRNA splicing, via spliceosome 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 biosynthetic process positive regulation of cellular process regulation of biosynthetic process regulation of mRNA processing RNA splicing biological regulation regulation of macromolecule metabolic process gene expression nucleobase-containing compound biosynthetic process regulation of RNA splicing mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process RNA splicing, via transesterification reactions positive regulation of gene expression mRNA splicing, via spliceosome RNA splicing, via transesterification reactions with bulged adenosine as nucleophile regulation of mRNA metabolic process positive regulation of RNA splicing positive regulation of cellular biosynthetic process	membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus nuclear protein-containing complex nuclear pore outer ring intracellular membrane-bounded organelle cellular anatomical entity endomembrane system intracellular organelle organelle envelope organelle nuclear envelope nuclear pore membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus nuclear protein-containing complex nuclear pore outer ring intracellular membrane-bounded organelle cellular anatomical entity endomembrane system intracellular organelle organelle envelope organelle nuclear envelope nuclear pore nuclear membrane membrane organelle membrane cytoplasm cytosol membrane-enclosed lumen intracellular organelle lumen organelle lumen nuclear periphery nuclear lumen nucleoplasm nuclear pore nuclear basket inclusion body nuclear inclusion body ribonucleoprotein complex nuclear body nuclear pore cytoplasmic filaments
B, D	Nuclear Pore Complex Protein Nup98	molecular condensate scaffold activity protein-macromolecule adaptor activity molecular adaptor activity transcription coactivator activity transcription regulator activity transcription coregulator activity peptidase activity serine hydrolase activity catalytic activity, acting on a protein serine-type peptidase activity hydrolase activity catalytic activity RNA binding binding molecular condensate scaffold activity protein-macromolecule adaptor activity molecular adaptor activity transcription coactivator activity transcription regulator activity transcription coregulator activity peptidase activity serine hydrolase activity catalytic activity, acting on a protein serine-type peptidase activity hydrolase activity catalytic activity RNA binding binding organic cyclic compound binding nucleic acid binding nuclear localization sequence binding signal sequence binding peptide binding protein-containing complex binding chromatin binding promoter-specific chromatin binding mRNA binding structural molecule activity structural constituent of nuclear pore	cellular component organization nucleus organization organelle organization nuclear pore organization protein-containing complex organization cellular process cellular component organization or biogenesis localization telomere localization telomere tethering at nuclear periphery chromosome localization organelle localization RNA transport nitrogen compound transport cellular component organization nucleus organization organelle organization nuclear pore organization protein-containing complex organization cellular process cellular component organization or biogenesis localization telomere localization telomere tethering at nuclear periphery chromosome localization organelle localization RNA transport nitrogen compound transport transport nucleic acid transport mRNA transport establishment of localization establishment of RNA localization macromolecule localization RNA localization nucleobase-containing compound transport cellular localization nucleocytoplasmic transport nuclear transport establishment of localization in cell intracellular transport protein localization establishment of protein localization protein localization to nucleus import into nucleus establishment of protein localization to organelle protein transport cellular macromolecule localization protein localization to organelle protein import into nucleus intracellular protein transport RNA export from nucleus nuclear export chromosome organization transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery post-transcriptional tethering of RNA polymerase II gene DNA at nuclear periphery pore complex assembly cellular component biogenesis nuclear pore complex assembly cellular component assembly protein-containing complex assembly organonitrogen compound metabolic process proteolysis metabolic process primary metabolic process protein metabolic process macromolecule metabolic process regulation of cellular process regulation of mRNA splicing, via spliceosome mRNA processing positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of metabolic process regulation of RNA metabolic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process RNA processing regulation of biological process positive regulation of nucleobase-containing compound metabolic process cellular metabolic process positive regulation of mRNA metabolic process regulation of cellular metabolic process positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of mRNA processing regulation of macromolecule biosynthetic process regulation of metabolic process positive regulation of mRNA splicing, via spliceosome 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 biosynthetic process positive regulation of cellular process regulation of biosynthetic process regulation of mRNA processing RNA splicing biological regulation regulation of macromolecule metabolic process gene expression nucleobase-containing compound biosynthetic process regulation of RNA splicing mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process RNA splicing, via transesterification reactions positive regulation of gene expression mRNA splicing, via spliceosome RNA splicing, via transesterification reactions with bulged adenosine as nucleophile regulation of mRNA metabolic process positive regulation of RNA splicing positive regulation of cellular biosynthetic process	membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus nuclear protein-containing complex nuclear pore outer ring intracellular membrane-bounded organelle cellular anatomical entity endomembrane system intracellular organelle organelle envelope organelle nuclear envelope nuclear pore membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus nuclear protein-containing complex nuclear pore outer ring intracellular membrane-bounded organelle cellular anatomical entity endomembrane system intracellular organelle organelle envelope organelle nuclear envelope nuclear pore nuclear membrane membrane organelle membrane cytoplasm cytosol membrane-enclosed lumen intracellular organelle lumen organelle lumen nuclear periphery nuclear lumen nucleoplasm nuclear pore nuclear basket inclusion body nuclear inclusion body ribonucleoprotein complex nuclear body nuclear pore cytoplasmic filaments

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C	IPR037665	Nucleoporin peptidase S59-like	Family
A, C	IPR036903	Nuclear pore complex protein Nup98-Nup96-like, autopeptidase S59 domain superfamily	Homologous Superfamily
A, C	IPR007230	Nuclear pore complex protein Nup98-Nup96-like, autopeptidase S59 domain	Domain
A, C	IPR021967	Nuclear pore complex protein NUP96, C-terminal domain	Domain
B, D	IPR037665	Nucleoporin peptidase S59-like	Family
B, D	IPR036903	Nuclear pore complex protein Nup98-Nup96-like, autopeptidase S59 domain superfamily	Homologous Superfamily
B, D	IPR007230	Nuclear pore complex protein Nup98-Nup96-like, autopeptidase S59 domain	Domain
B, D	IPR021967	Nuclear pore complex protein NUP96, C-terminal domain	Domain

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.