7NQA

Crystal structure of Nucleoporin-98 nanobody MS98-6 complex solved at 2.2A resolution

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
SAbDab Antibody Annotation
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)
B [auth D]	d7nqad_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	Alpaca, Lama pacos (Vicugna pacos ) [TaxId: 30538 ],	SCOPe (2.08)
D [auth C]	d7nqac_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	Alpaca, Lama pacos (Vicugna pacos ) [TaxId: 30538 ],	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	8102799	3002026	SCOP2B (2022-06-29)
C [auth B]	SCOP2B Superfamily	ZU5 domain-like	8102799	3002026	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	PF04096	e7nqaA1	A: beta sandwiches	X: Glycosyl hydrolase domain-like	H: ZU5/Nup98-C/GAIN-B autoproteolytic domain-related (From Topology)	T: ZU5/Nup98-C/GAIN-B autoproteolytic domain-related	F: PF04096	ECOD (1.6)
C [auth B]	PF04096	e7nqaB1	A: beta sandwiches	X: Glycosyl hydrolase domain-like	H: ZU5/Nup98-C/GAIN-B autoproteolytic domain-related (From Topology)	T: ZU5/Nup98-C/GAIN-B autoproteolytic domain-related	F: PF04096	ECOD (1.6)
B [auth D]	PF07686	e7nqaD1	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)
D [auth C]	PF07686	e7nqaC1	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
B [auth D], D [auth C]	Heavy Chain	IGHV1	-	nuclear pore complex protein nup96	SAbDab (2024-05-31)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C [auth B]	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 [auth B]	Nuclear pore complex protein Nup98-Nup96	RNA binding binding organic cyclic compound binding nucleic acid binding structural molecule activity structural constituent of nuclear pore nuclear localization sequence binding signal sequence binding peptide binding	localization telomere localization telomere tethering at nuclear periphery chromosome localization organelle localization RNA transport nitrogen compound transport transport organic substance transport nucleic acid transport mRNA transport establishment of localization establishment of RNA localization macromolecule localization localization telomere localization telomere tethering at nuclear periphery chromosome localization organelle localization RNA transport nitrogen compound transport transport organic substance transport nucleic acid transport mRNA transport establishment of localization establishment of RNA localization macromolecule localization RNA localization nucleobase-containing compound transport cellular component organization organelle organization chromosome organization cellular process cellular component organization or biogenesis 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 cellular localization nucleocytoplasmic transport nuclear transport intracellular transport protein localization to nucleus import into nucleus establishment of protein localization to organelle protein transport cellular macromolecule localization protein localization to organelle establishment of localization in cell protein import into nucleus intracellular protein transport RNA export from nucleus nuclear export	membrane-bounded organelle intracellular anatomical structure nuclear membrane membrane nucleus cellular anatomical entity intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope organelle nuclear envelope organelle membrane protein-containing complex membrane-bounded organelle intracellular anatomical structure nuclear membrane membrane nucleus cellular anatomical entity intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope organelle nuclear envelope organelle membrane protein-containing complex nuclear protein-containing complex nuclear pore cytoplasmic filaments nuclear pore
B [auth D], D [auth C]	Anti-Nup98 Nanobody MS98-6	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C [auth B]	IPR025574	Nucleoporin FG repeat	Repeat
A, C [auth B]	IPR037665	Nucleoporin peptidase S59-like	Family
A, C [auth B]	IPR036903	Nuclear pore complex protein Nup98-Nup96-like, autopeptidase S59 domain superfamily	Homologous Superfamily
A, C [auth B]	IPR007230	Nuclear pore complex protein Nup98-Nup96-like, autopeptidase S59 domain	Domain
A, C [auth B]	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.