6X02

Nup84-Nup133 (aa521-1157) from S. cerevisiae bound by VHH-SAN8

External Resource: Annotation

Domain Annotation: ECOD Classification
SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C	PF07686	e6x02C1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
C	Heavy Chain	IGHV1	-	-	SAbDab (2024-05-03)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF04121	Nuclear pore protein 84 / 107 (Nup84_Nup100)	Nuclear pore protein 84 / 107	-	Family
B	PF03177	Non-repetitive/WGA-negative nucleoporin C-terminal (Nucleoporin_C)	Non-repetitive/WGA-negative nucleoporin C-terminal	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Nucleoporin NUP84	structural molecule activity structural constituent of nuclear pore identical protein binding protein binding binding	cellular component organization localization nuclear pore localization cellular localization nucleus organization organelle organization cellular process localization within membrane cellular component organization or biogenesis protein-containing complex localization telomere localization telomere tethering at nuclear periphery chromosome localization organelle localization cellular component organization localization nuclear pore localization cellular localization nucleus organization organelle organization cellular process localization within membrane cellular component organization or biogenesis protein-containing complex localization telomere localization telomere tethering at nuclear periphery chromosome localization organelle localization subtelomeric heterochromatin formation regulation of cellular process cellular biosynthetic process negative regulation of biological process telomere organization negative regulation of cellular metabolic process protein-DNA complex organization organic substance metabolic process chromatin organization organic substance biosynthetic process negative regulation of cellular process chromatin remodeling negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process heterochromatin formation protein-containing complex organization epigenetic regulation of gene expression cellular metabolic process negative regulation of metabolic process biological regulation chromosome organization regulation of cellular metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process negative regulation of cellular biosynthetic process regulation of cellular biosynthetic process regulation of gene expression negative regulation of gene expression constitutive heterochromatin formation biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of gene expression, epigenetic regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process nitrogen compound transport nucleocytoplasmic transport transport nuclear transport mRNA transport mRNA export from nucleus establishment of localization in cell RNA localization nuclear export nucleobase-containing compound transport RNA transport organic substance transport nucleic acid transport intracellular transport establishment of localization RNA export from nucleus establishment of RNA localization macromolecule localization 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 positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of nucleobase-containing compound metabolic process primary metabolic process positive regulation of RNA metabolic process organic cyclic compound metabolic process organic cyclic compound biosynthetic process regulation of DNA-templated transcription positive regulation of DNA-templated transcription 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 RNA biosynthetic process nucleobase-containing compound biosynthetic process nucleic acid metabolic process positive regulation of RNA biosynthetic process positive regulation of cellular biosynthetic process silent mating-type cassette heterochromatin formation cellular response to stimulus double-strand break repair response to stimulus DNA metabolic process cellular response to stress DNA damage response response to stress DNA repair transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery post-transcriptional tethering of RNA polymerase II gene DNA at nuclear periphery 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 transcription by RNA polymerase II regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II response to organic substance response to heat response to temperature stimulus response to organic cyclic compound cellular response to heat response to nitrogen compound mRNA export from nucleus in response to heat stress response to chemical response to abiotic stimulus	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 intracellular non-membrane-bounded organelle chromosome chromosome, telomeric region chromosomal region non-membrane-bounded organelle
C	VHH-SAN8	-	-	-
B	Nucleoporin NUP133	structural molecule activity structural constituent of nuclear pore	cellular component organization localization nuclear pore localization cellular localization nucleus organization organelle organization cellular process localization within membrane cellular component organization or biogenesis protein-containing complex localization telomere localization telomere tethering at nuclear periphery chromosome localization organelle localization cellular component organization localization nuclear pore localization cellular localization nucleus organization organelle organization cellular process localization within membrane cellular component organization or biogenesis protein-containing complex localization telomere localization telomere tethering at nuclear periphery chromosome localization organelle localization RNA transport nitrogen compound transport nucleocytoplasmic transport transport nuclear transport organic substance transport nucleic acid transport intracellular transport tRNA export from nucleus establishment of localization RNA export from nucleus tRNA transport establishment of RNA localization establishment of localization in cell macromolecule localization RNA localization nuclear export nucleobase-containing compound transport chromosome organization transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery regulation of cellular process cellular biosynthetic process negative regulation of biological process negative regulation of cellular metabolic process protein-DNA complex organization organic substance metabolic process chromatin organization organic substance biosynthetic process negative regulation of cellular process chromatin remodeling negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process heterochromatin formation protein-containing complex organization epigenetic regulation of gene expression cellular metabolic process negative regulation of metabolic process biological regulation regulation of cellular metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process negative regulation of cellular biosynthetic process regulation of cellular biosynthetic process regulation of gene expression negative regulation of gene expression constitutive heterochromatin formation biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process silent mating-type cassette heterochromatin formation negative regulation of gene expression, epigenetic regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process 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 cellular response to stimulus response to organic substance response to stimulus response to heat mRNA transport response to temperature stimulus cellular response to stress mRNA export from nucleus response to stress response to organic cyclic compound cellular response to heat response to nitrogen compound mRNA export from nucleus in response to heat stress response to chemical response to abiotic stimulus poly(A)+ mRNA export from nucleus subtelomeric heterochromatin formation telomere organization 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 positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of nucleobase-containing compound metabolic process primary metabolic process positive regulation of RNA metabolic process organic cyclic compound metabolic process organic cyclic compound biosynthetic process regulation of DNA-templated transcription positive regulation of DNA-templated transcription 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 RNA biosynthetic process nucleobase-containing compound biosynthetic process nucleic acid metabolic process positive regulation of RNA biosynthetic process positive regulation of cellular biosynthetic process double-strand break repair DNA metabolic process DNA damage response DNA repair post-transcriptional tethering of RNA polymerase II gene DNA at nuclear periphery negative regulation of RNA biosynthetic process transcription by RNA polymerase II negative regulation of nucleobase-containing compound metabolic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II negative regulation of RNA metabolic process positive regulation of transcription by RNA polymerase II	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 intracellular non-membrane-bounded organelle chromosome chromosome, telomeric region chromosomal region non-membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR007252	Nuclear pore protein 84/107	Family
B	IPR037624	Nuclear pore complex protein Nup133-like	Family
B	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
B	IPR014908	Nucleoporin, Nup133/Nup155-like, N-terminal	Domain
B	IPR007187	Nucleoporin, Nup133/Nup155-like, C-terminal	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.