3T97

Molecular Architecture of the Transport Channel of the Nuclear Pore Complex: Nup62/Nup54

External Resource: Annotation

Domain Annotation: SCOP2 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 [auth B]	SCOP2 Family	Nup54-like	8049317	4006450	SCOP2 (2022-06-29)
A [auth B]	SCOP2 Superfamily	Nup54-like	8053269	3002171	SCOP2 (2022-06-29)
B [auth C]	SCOP2 Family	Nup62-like	8046766	4005288	SCOP2 (2022-06-29)
B [auth C]	SCOP2 Superfamily	Nup62-like	8053264	3002170	SCOP2 (2022-06-29)
C [auth A]	SCOP2B Superfamily	Nup62-like	8053264	3002170	SCOP2B (2022-06-29)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth B]	1.20.5.490	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces	Single helix bin	CATH (4.3.0)
B [auth C]	1.20.5.170	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
C [auth A]	1.20.5.170	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth B]	PF13874	Nucleoporin complex subunit 54 (Nup54)	Nucleoporin complex subunit 54	This is the human Nup54 subunit of the nucleoporin complex, equivalent to Nup57 of yeast. Nup54, Nup58 and Nup62 all have similar affinities for importin-beta. It seems likely that they are the only FG-repeat nucleoporins of the central channel, and ...	This is the human Nup54 subunit of the nucleoporin complex, equivalent to Nup57 of yeast. Nup54, Nup58 and Nup62 all have similar affinities for importin-beta. It seems likely that they are the only FG-repeat nucleoporins of the central channel, and as such they would form a zone of equal affinity spanning the central channel. The diffusion of importin-beta import complexes through the central channel may be a stochastic process as the affinities are similar, whereas movement from cytoplasmic fibrils to the central channel and from the central channel to the nuclear basket would be facilitated by the subtle differences in affinity between them [1,2].	Domain
B [auth C], C [auth A]	PF05064	Nsp1-like C-terminal region (Nsp1_C)	Nsp1-like C-terminal region	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth B]	Nuclear pore complex protein Nup54	protein-containing complex binding binding structural molecule activity structural constituent of nuclear pore identical protein binding protein binding	cellular component organization nucleus organization organelle organization nuclear pore organization protein-containing complex organization cellular process cellular component organization or biogenesis protein localization regulation of localization establishment of protein localization cellular localization nitrogen compound transport regulation of cellular process nucleocytoplasmic transport cellular component organization nucleus organization organelle organization nuclear pore organization protein-containing complex organization cellular process cellular component organization or biogenesis protein localization regulation of localization establishment of protein localization cellular localization nitrogen compound transport regulation of cellular process nucleocytoplasmic transport regulation of protein localization transport nuclear transport regulation of protein localization to nucleus localization import into nucleus regulation of protein import into nucleus cellular macromolecule localization establishment of localization in cell protein import into nucleus regulation of intracellular transport regulation of biological process regulation of transport organic substance transport biological regulation regulation of establishment of protein localization intracellular transport regulation of nucleocytoplasmic transport protein localization to nucleus regulation of protein transport establishment of localization establishment of protein localization to organelle protein transport regulation of cellular localization macromolecule localization protein localization to organelle regulation of intracellular protein transport intracellular protein transport NLS-bearing protein import into nucleus RNA transport nucleic acid transport mRNA transport establishment of RNA localization RNA localization nucleobase-containing compound transport protein targeting localization within membrane protein localization to membrane protein localization to nuclear envelope protein localization to nuclear inner membrane	membrane-bounded organelle intracellular organelle organelle envelope intracellular anatomical structure organelle nuclear envelope nucleus cellular anatomical entity intracellular membrane-bounded organelle endomembrane system nuclear membrane membrane organelle membrane protein-containing complex membrane-bounded organelle intracellular organelle organelle envelope intracellular anatomical structure organelle nuclear envelope nucleus cellular anatomical entity intracellular membrane-bounded organelle endomembrane system nuclear membrane membrane organelle membrane protein-containing complex nuclear protein-containing complex nuclear pore nuclear pore central transport channel
B [auth C], C [auth A]	Nuclear pore glycoprotein p62	Hsp90 protein binding protein binding binding heat shock protein binding cytoskeletal protein binding kinesin binding transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding nuclear receptor binding nuclear thyroid hormone receptor binding DNA-binding transcription factor binding SH2 domain binding protein domain specific binding PTB domain binding Hsp90 protein binding protein binding binding heat shock protein binding cytoskeletal protein binding kinesin binding transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding nuclear receptor binding nuclear thyroid hormone receptor binding DNA-binding transcription factor binding SH2 domain binding protein domain specific binding PTB domain binding Hsp70 protein binding protein-folding chaperone binding ubiquitin binding ubiquitin-like protein binding phospholipid binding lipid binding protein-containing complex binding structural molecule activity structural constituent of nuclear pore signaling receptor complex adaptor activity protein-macromolecule adaptor activity molecular adaptor activity signaling adaptor activity	protein localization regulation of localization establishment of protein localization cellular localization nitrogen compound transport regulation of cellular process nucleocytoplasmic transport regulation of protein localization transport nuclear transport regulation of protein localization to nucleus localization import into nucleus regulation of protein import into nucleus cellular macromolecule localization protein localization regulation of localization establishment of protein localization cellular localization nitrogen compound transport regulation of cellular process nucleocytoplasmic transport regulation of protein localization transport nuclear transport regulation of protein localization to nucleus localization import into nucleus regulation of protein import into nucleus cellular macromolecule localization establishment of localization in cell protein import into nucleus regulation of intracellular transport regulation of biological process regulation of transport organic substance transport biological regulation regulation of establishment of protein localization intracellular transport regulation of nucleocytoplasmic transport protein localization to nucleus regulation of protein transport establishment of localization establishment of protein localization to organelle protein transport regulation of cellular localization macromolecule localization protein localization to organelle regulation of intracellular protein transport cellular process intracellular protein transport cellular response to stimulus positive regulation of cell communication positive regulation of signal transduction positive regulation of canonical NF-kappaB signal transduction response to stimulus signaling positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette signal transduction positive regulation of cellular process regulation of signaling positive regulation of intracellular signal transduction canonical NF-kappaB signal transduction regulation of response to stimulus regulation of cell communication regulation of canonical NF-kappaB signal transduction positive regulation of signaling developmental process spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation RNA transport nucleic acid transport mRNA transport establishment of RNA localization RNA localization nucleobase-containing compound transport negative regulation of programmed cell death regulation of apoptotic process negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process apoptotic process programmed cell death establishment of organelle localization mitotic metaphase chromosome alignment mitotic cell cycle metaphase chromosome alignment cellular component organization chromosome localization organelle localization mitotic sister chromatid segregation cell cycle cellular component organization or biogenesis chromosome segregation cell cycle process mitotic nuclear division organelle fission chromosome organization sister chromatid segregation organelle organization nuclear division mitotic cell cycle process nuclear chromosome segregation establishment of chromosome localization negative regulation of signaling negative regulation of ERBB signaling pathway cell surface receptor protein tyrosine kinase signaling pathway negative regulation of cell communication regulation of epidermal growth factor receptor signaling pathway epidermal growth factor receptor signaling pathway enzyme-linked receptor protein signaling pathway regulation of ERBB signaling pathway cell surface receptor signaling pathway negative regulation of response to stimulus negative regulation of signal transduction negative regulation of epidermal growth factor receptor signaling pathway ERBB signaling pathway positive regulation of cell division cytoskeleton-dependent cytokinesis regulation of mitotic cytokinetic process positive regulation of mitotic cytokinesis mitotic cytokinetic process mitotic cytokinesis regulation of cell division regulation of mitotic cytokinesis positive regulation of cytokinesis positive regulation of mitotic cytokinetic process positive regulation of cell cycle process regulation of cell cycle regulation of cytokinesis regulation of cell cycle process cytokinesis regulation of cytokinetic process positive regulation of cell cycle cytokinetic process cell division small GTPase-mediated signal transduction regulation of small GTPase mediated signal transduction negative regulation of intracellular signal transduction regulation of Ras protein signal transduction Ras protein signal transduction negative regulation of small GTPase mediated signal transduction negative regulation of Ras protein signal transduction cellular response to stress response to stress cellular metabolic process cellular senescence metabolic process positive regulation of organelle organization regulation of cellular component organization positive regulation of cellular component organization regulation of mitotic nuclear division positive regulation of mitotic nuclear division regulation of mitotic cell cycle positive regulation of nuclear division regulation of organelle organization regulation of nuclear division RNA export from nucleus nuclear export regulation of cytoskeleton organization microtubule cytoskeleton organization regulation of mitotic spindle organization microtubule cytoskeleton organization involved in mitosis spindle organization regulation of microtubule-based process regulation of spindle organization mitotic spindle organization microtubule-based process cytoskeleton organization regulation of microtubule cytoskeleton organization centriole assembly microtubule organizing center organization organelle assembly non-membrane-bounded organelle assembly cellular component biogenesis cellular component assembly negative regulation of cell population proliferation cell population proliferation regulation of cell population proliferation centrosome cycle positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process organic substance biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of nucleobase-containing compound metabolic process primary metabolic process regulation of cellular metabolic process positive regulation of RNA metabolic process organic cyclic compound metabolic process regulation of gene expression biosynthetic process organic cyclic compound biosynthetic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process positive regulation of DNA-templated transcription cellular biosynthetic process RNA metabolic process positive regulation of cellular metabolic process RNA biosynthetic process nucleic acid biosynthetic process organic substance metabolic process positive regulation of biosynthetic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process positive regulation of RNA biosynthetic process positive regulation of cellular biosynthetic process centrosome duplication regulation of centriole replication centriole replication positive regulation of cellular component biogenesis regulation of centrosome cycle positive regulation of cytoskeleton organization regulation of cellular component biogenesis regulation of organelle assembly regulation of centrosome duplication positive regulation of centriole replication positive regulation of organelle assembly protein localization to microtubule cytoskeleton regulation of protein localization to centrosome protein localization to microtubule organizing center protein localization to cytoskeleton positive regulation of protein localization positive regulation of protein localization to centrosome protein localization to centrosome centrosome separation mitotic centrosome separation	intracellular organelle intracellular anatomical structure cytoskeleton spindle organelle intracellular non-membrane-bounded organelle spindle pole cellular anatomical entity microtubule cytoskeleton non-membrane-bounded organelle membrane-bounded organelle organelle envelope nuclear envelope nucleus intracellular organelle intracellular anatomical structure cytoskeleton spindle organelle intracellular non-membrane-bounded organelle spindle pole cellular anatomical entity microtubule cytoskeleton non-membrane-bounded organelle membrane-bounded organelle organelle envelope nuclear envelope nucleus intracellular membrane-bounded organelle endomembrane system nuclear membrane membrane organelle membrane protein-containing complex nuclear protein-containing complex nuclear pore nuclear pore central transport channel centrosome microtubule organizing center cytoplasm mitotic spindle Flemming body midbody ribonucleoprotein complex nuclear outer membrane-endoplasmic reticulum membrane network annulate lamellae

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth B]	IPR040985	Nup54, C-terminal interacting domain	Domain
A [auth B]	IPR024864	Nucleoporin Nup54/Nup57/Nup44	Family
A [auth B]	IPR025712	Nucleoporin Nup54, alpha-helical domain	Domain
B [auth C], C [auth A]	IPR007758	Nucleoporin, NSP1-like, C-terminal	Domain
B [auth C], C [auth A]	IPR026010	Nucleoporin NSP1/NUP62	Family

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.