3NBZ

Crystal structure of the HIV-1 Rev NES-CRM1-RanGTP nuclear export complex (crystal I)

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
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
F	d3nbzf_	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	G proteins	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d3nbzc_	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	G proteins	automated matches	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)
B	SCOP2B Superfamily	DNA ligase/mRNA capping enzyme catalytic domain	8102757	3000798	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	DNA ligase/mRNA capping enzyme catalytic domain	8102757	3000798	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Ras-like P-loop GTPases	8057412	3002022	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Ras-like P-loop GTPases	8057412	3002022	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)
B	PF21974	e3nbzB1	A: a+b complex topology	X: Protein kinase/SAICAR synthase/ATP-grasp (From Homology)	H: Protein kinase/SAICAR synthase/ATP-grasp	T: ATP-grasp	F: PF21974	ECOD (1.6)
B	PF11538	e3nbzB2	A: extended segments	X: IBB domain (From Topology)	H: IBB domain (From Topology)	T: IBB domain	F: PF11538	ECOD (1.6)
E	PF21974	e3nbzE1	A: a+b complex topology	X: Protein kinase/SAICAR synthase/ATP-grasp (From Homology)	H: Protein kinase/SAICAR synthase/ATP-grasp	T: ATP-grasp	F: PF21974	ECOD (1.6)
E	PF11538	e3nbzE2	A: extended segments	X: IBB domain (From Topology)	H: IBB domain (From Topology)	T: IBB domain	F: PF11538	ECOD (1.6)
F	PF00071	e3nbzF1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF00071	ECOD (1.6)
C	PF00071	e3nbzC1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF00071	ECOD (1.6)
A	PF03810,PF08389,PF08767,PF18777,PF18784,PF18787	e3nbzA1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PF03810,PF08389,PF08767,PF18777,PF18784,PF18787	ECOD (1.6)
D	PF03810,PF08389,PF08767,PF18777,PF18784,PF18787	e3nbzD1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PF03810,PF08389,PF08767,PF18777,PF18784,PF18787	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.30.470.30	Alpha Beta	2-Layer Sandwich	D-amino Acid Aminotransferase	Chain A, domain 1	CATH (4.3.0)
E	3.30.470.30	Alpha Beta	2-Layer Sandwich	D-amino Acid Aminotransferase	Chain A, domain 1	CATH (4.3.0)
F	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
C	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, E	PF11538	Snurportin1 (Snurportin1)	Snurportin1	-	Family
C, F	PF00071	Ras family (Ras)	Ras family	Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See Pfam:PF00009 Pfam:PF00025, Pfam:PF00063. As regards Rab GTPases, these are important regulators of vesicle formation, motil ...	Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See Pfam:PF00009 Pfam:PF00025, Pfam:PF00063. As regards Rab GTPases, these are important regulators of vesicle formation, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices [1].	Domain
A, D	PF08389	Exportin 1-like protein (Xpo1)	Exportin 1-like protein	-	Repeat
A, D	PF18784	CRM1 / Exportin repeat 2 (CRM1_repeat_2)	CRM1 / Exportin repeat 2	-	Repeat
A, D	PF18777	Chromosome region maintenance or exportin repeat (CRM1_repeat)	Chromosome region maintenance or exportin repeat	-	Repeat
A, D	PF18787	CRM1 / Exportin repeat 3 (CRM1_repeat_3)	CRM1 / Exportin repeat 3	-	Repeat
A, D	PF03810	Importin-beta N-terminal domain (IBN_N)	Importin-beta N-terminal domain	-	Repeat
A, D	PF08767	CRM1 C terminal (CRM1_C)	CRM1 C terminal	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, E	Snurportin-1	nuclear import signal receptor activity nucleocytoplasmic carrier activity molecular carrier activity RNA binding binding organic cyclic compound binding nucleic acid binding RNA cap binding	cellular localization RNA import into nucleus RNA transport nitrogen compound transport nucleocytoplasmic transport transport nuclear transport organic substance transport nucleic acid transport intracellular transport establishment of localization localization import into nucleus establishment of RNA localization establishment of localization in cell cellular localization RNA import into nucleus RNA transport nitrogen compound transport nucleocytoplasmic transport transport nuclear transport organic substance transport nucleic acid transport intracellular transport establishment of localization localization import into nucleus establishment of RNA localization establishment of localization in cell macromolecule localization cellular process RNA localization nucleobase-containing compound transport snRNA import into nucleus snRNA transport protein localization establishment of protein localization protein localization to nucleus establishment of protein localization to organelle protein transport cellular macromolecule localization protein localization to organelle protein import into nucleus intracellular protein transport	protein-containing complex nucleocytoplasmic transport complex NLS-dependent protein nuclear import complex intracellular anatomical structure cytoplasm cellular anatomical entity cytosol cell periphery plasma membrane membrane membrane-bounded organelle nucleus nuclear protein-containing complex intracellular membrane-bounded organelle protein-containing complex nucleocytoplasmic transport complex NLS-dependent protein nuclear import complex intracellular anatomical structure cytoplasm cellular anatomical entity cytosol cell periphery plasma membrane membrane membrane-bounded organelle nucleus nuclear protein-containing complex intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope organelle nuclear envelope envelope nuclear pore membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen
C, F	GTP-binding nuclear protein Ran	cell adhesion molecule binding cadherin binding protein binding binding dynein intermediate chain binding pyrophosphatase activity GTPase activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity protein domain specific binding protein-containing complex binding cell adhesion molecule binding cadherin binding protein binding binding dynein intermediate chain binding pyrophosphatase activity GTPase activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity protein domain specific binding protein-containing complex binding chromatin binding protein heterodimerization activity protein dimerization activity RNA binding organic cyclic compound binding nucleic acid binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding cation binding magnesium ion binding metal ion binding GDP binding G protein activity molecular function regulator activity importin-alpha family protein binding	protein localization cellular localization establishment of protein localization nitrogen compound transport nucleocytoplasmic transport transport nuclear transport organic substance transport intracellular transport protein export from nucleus establishment of localization localization protein transport establishment of localization in cell cellular macromolecule localization protein localization cellular localization establishment of protein localization nitrogen compound transport nucleocytoplasmic transport transport nuclear transport organic substance transport intracellular transport protein export from nucleus establishment of localization localization protein transport establishment of localization in cell cellular macromolecule localization macromolecule localization cellular process nuclear export intracellular protein transport viral process cell division protein localization to nucleus import into nucleus establishment of protein localization to organelle protein localization to organelle protein import into nucleus cellular component organization organelle organization actin cytoskeleton organization actin filament-based process cellular component organization or biogenesis cytoskeleton organization regulation of localization regulation of cellular process positive regulation of establishment of protein localization regulation of intracellular transport regulation of biological process positive regulation of protein localization to nucleus positive regulation of protein import into nucleus regulation of nucleocytoplasmic transport positive regulation of protein localization regulation of intracellular protein transport positive regulation of intracellular protein transport regulation of protein localization positive regulation of nucleocytoplasmic transport positive regulation of biological process regulation of protein localization to nucleus positive regulation of protein transport regulation of protein import into nucleus positive regulation of intracellular transport positive regulation of cellular process regulation of transport biological regulation regulation of establishment of protein localization regulation of protein transport positive regulation of transport regulation of cellular localization developmental process spermatid development multicellular organismal process spermatid differentiation sexual reproduction cellular developmental process spermatogenesis reproductive process multicellular organismal reproductive process cell development cellular process involved in reproduction in multicellular organism developmental process involved in reproduction reproduction gamete generation male gamete generation cell differentiation anatomical structure development germ cell development multicellular organism reproduction cellular metabolic process cellular nitrogen compound metabolic process primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process heterocycle metabolic process nitrogen compound metabolic process metabolic process macromolecule metabolic process cellular aromatic compound metabolic process ribose phosphate metabolic process GTP metabolic process carbohydrate derivative metabolic process purine nucleotide metabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process purine ribonucleoside triphosphate metabolic process phosphate-containing compound metabolic process small molecule metabolic process phosphorus metabolic process ribonucleoside triphosphate metabolic process nucleoside phosphate metabolic process purine nucleoside triphosphate metabolic process organonitrogen compound metabolic process nucleotide metabolic process purine-containing compound metabolic process organophosphate metabolic process nucleoside triphosphate metabolic process purine ribonucleotide metabolic process regulation of protein binding positive regulation of molecular function regulation of molecular function positive regulation of protein binding regulation of binding positive regulation of binding cellular response to stimulus response to organic substance cellular response to mineralocorticoid stimulus response to stimulus response to lipid response to endogenous stimulus cellular response to organic cyclic compound response to mineralocorticoid cellular response to corticosteroid stimulus cellular response to endogenous stimulus response to corticosteroid cellular response to chemical stimulus response to hormone response to chemical response to steroid hormone cellular response to lipid cellular response to organic substance cellular response to steroid hormone stimulus response to organic cyclic compound cellular response to hormone stimulus cell cycle mitotic cell cycle head development forebrain development animal organ development brain development nervous system development pallium development multicellular organism development central nervous system development telencephalon development hippocampus development limbic system development system development negative regulation of biological process negative regulation of cellular metabolic process post-transcriptional regulation of gene expression organic substance biosynthetic process RNA localization RNA transport negative regulation of metabolic process pre-miRNA export from nucleus regulation of cellular metabolic process negative regulation of cellular biosynthetic process RNA export from nucleus miRNA-mediated post-transcriptional gene silencing regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of macromolecule biosynthetic process post-transcriptional gene silencing regulation of macromolecule biosynthetic process regulation of metabolic process cellular biosynthetic process negative regulation of cellular process nucleobase-containing compound transport negative regulation of macromolecule metabolic process regulation of biosynthetic process nucleic acid transport regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulatory ncRNA-mediated post-transcriptional gene silencing regulatory ncRNA-mediated gene silencing regulation of cellular biosynthetic process establishment of RNA localization negative regulation of biosynthetic process establishment of organelle localization ribonucleoprotein complex biogenesis ribosomal subunit export from nucleus protein-containing complex localization cellular component biogenesis ribosome biogenesis ribosomal small subunit export from nucleus organelle localization ribosome localization ribosomal large subunit export from nucleus mitotic nuclear division organelle fission chromosome organization sister chromatid segregation nuclear division mitotic cell cycle process mitotic sister chromatid segregation nuclear chromosome segregation chromosome segregation cell cycle process protein localization to nucleolus microtubule cytoskeleton organization mitotic spindle organization microtubule-based process microtubule cytoskeleton organization involved in mitosis spindle organization RNA import into nucleus snRNA import into nucleus snRNA transport	membrane cellular anatomical entity protein-containing complex nucleocytoplasmic transport complex RNA nuclear export complex membrane-bounded organelle intracellular anatomical structure nucleus intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope organelle nuclear envelope membrane cellular anatomical entity protein-containing complex nucleocytoplasmic transport complex RNA nuclear export complex membrane-bounded organelle intracellular anatomical structure nucleus intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope organelle nuclear envelope envelope extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space vesicle extracellular membrane-bounded organelle cytoplasm cytosol cell projection cilium 9+2 motile cilium sperm flagellum motile cilium plasma membrane bounded cell projection nuclear protein-containing complex nuclear pore protein-DNA complex intracellular non-membrane-bounded organelle chromatin chromosome non-membrane-bounded organelle endosome intracellular vesicle recycling endosome cytoplasmic vesicle male germ cell nucleus germ cell nucleus midbody membrane-enclosed lumen nucleolus intracellular organelle lumen organelle lumen nuclear lumen pigment granule melanosome microtubule organizing center cytoskeleton centriole microtubule cytoskeleton nucleoplasm manchette
A, D	Exportin-1	small GTPase binding protein binding binding enzyme binding GTPase binding protein domain specific binding RNA binding organic cyclic compound binding nucleic acid binding nucleocytoplasmic carrier activity nuclear export signal receptor activity molecular carrier activity transcription factor binding DNA-binding transcription factor binding	establishment of organelle localization cellular localization ribonucleoprotein complex biogenesis nucleocytoplasmic transport transport nuclear transport ribosomal subunit export from nucleus intracellular transport establishment of localization protein-containing complex localization cellular component biogenesis localization ribosome biogenesis ribosomal small subunit export from nucleus organelle localization establishment of organelle localization cellular localization ribonucleoprotein complex biogenesis nucleocytoplasmic transport transport nuclear transport ribosomal subunit export from nucleus intracellular transport establishment of localization protein-containing complex localization cellular component biogenesis localization ribosome biogenesis ribosomal small subunit export from nucleus organelle localization establishment of localization in cell cellular process cellular component organization or biogenesis nuclear export ribosome localization protein localization establishment of protein localization nitrogen compound transport organic substance transport protein export from nucleus protein transport cellular macromolecule localization macromolecule localization intracellular protein transport organonitrogen compound catabolic process regulation of biological process organonitrogen compound metabolic process catabolic process regulation of protein metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process protein catabolic process regulation of catabolic process macromolecule catabolic process regulation of primary metabolic process regulation of nitrogen compound metabolic process organic substance metabolic process nitrogen compound metabolic process metabolic process protein metabolic process macromolecule metabolic process regulation of metabolic process organic substance catabolic process regulation of protein catabolic process cellular biosynthetic process mRNA transport mRNA export from nucleus organic substance biosynthetic process RNA localization nucleobase-containing compound transport RNA transport cellular metabolic process nucleic acid transport gene expression macromolecule biosynthetic process RNA export from nucleus establishment of RNA localization biosynthetic process microtubule organizing center organization regulation of cellular process regulation of cellular component organization regulation of centrosome cycle regulation of cell cycle process microtubule cytoskeleton organization regulation of microtubule-based process cellular component organization centrosome duplication organelle organization centrosome cycle regulation of centrosome duplication microtubule-based process cell cycle regulation of cell cycle cytoskeleton organization cell cycle process regulation of localization regulation of protein localization regulation of protein export from nucleus regulation of intracellular transport regulation of transport regulation of establishment of protein localization regulation of nucleocytoplasmic transport regulation of protein transport regulation of cellular localization regulation of intracellular protein transport ribosomal large subunit export from nucleus proteolysis involved in protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process regulation of ubiquitin-dependent protein catabolic process regulation of proteolysis involved in protein catabolic process regulation of proteolysis modification-dependent macromolecule catabolic process proteolysis proteasomal protein catabolic process regulation of proteasomal ubiquitin-dependent protein catabolic process modification-dependent protein catabolic process regulation of proteasomal protein catabolic process ubiquitin-dependent protein catabolic process negative regulation of biological process negative regulation of nitrogen compound metabolic process cellular nitrogen compound biosynthetic process negative regulation of cellular metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II heterocycle metabolic process negative regulation of nucleobase-containing compound metabolic process 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 metabolic process cellular nitrogen compound metabolic process regulation of cellular metabolic process negative regulation of cellular biosynthetic process organic cyclic compound metabolic process regulation of gene expression aromatic compound biosynthetic process negative regulation of macromolecule biosynthetic process organic cyclic compound biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription negative regulation of RNA metabolic process RNA metabolic process RNA biosynthetic process negative regulation of cellular process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process nucleobase-containing compound biosynthetic process heterocycle biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process negative regulation of biosynthetic process cellular aromatic compound metabolic process protein localization to organelle protein localization to nucleus	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 nuclear membrane membrane endomembrane system organelle envelope nuclear envelope envelope organelle membrane cytoplasm cytosol nucleoplasm protein-containing complex chromosome chromosomal region kinetochore chromosome, centromeric region condensed chromosome, centromeric region supramolecular complex condensed chromosome Cajal body nuclear body ribonucleoprotein complex nuclear outer membrane-endoplasmic reticulum membrane network annulate lamellae

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, E	IPR002652	Importin-alpha, importin-beta-binding domain	Domain
B, E	IPR017336	Snurportin-1	Family
B, E	IPR047857	Snurportin-1, m3G cap-binding domain	Domain
B, E	IPR024721	Snurportin-1, N-terminal	Domain
C, F	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
C, F	IPR002041	Ran GTPase	Family
C, F	IPR001806	Small GTPase	Family
C, F	IPR005225	Small GTP-binding protein domain	Domain
A, D	IPR041123	Chromosome region maintenance repeat	Repeat
A, D	IPR016024	Armadillo-type fold	Homologous Superfamily
A, D	IPR041235	Exportin-1, repeat 2	Repeat
A, D	IPR001494	Importin-beta, N-terminal domain	Domain
A, D	IPR011989	Armadillo-like helical	Homologous Superfamily
A, D	IPR045065	Exportin-1/5	Family
A, D	IPR013598	Exportin-1/Importin-beta-like	Domain
A, D	IPR014877	Exportin-1, C-terminal	Domain
A, D	IPR040485	Exportin-1, repeat 3	Repeat

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C, F	Pharos: P62826	keloid carcinoma HIV infectious disease Mammary Neoplasms, Experimental sarcomatoid carcinoma pemphigus undifferentiated carcinoma acute myeloid leukemia mammary neoplasms, animal nasopharyngeal carcinoma plasma cell myeloma amyotrophic lateral sclerosis lymphoplasmacytic lymphoma osteoarthritis ovarian cancer keloid carcinoma HIV infectious disease Mammary Neoplasms, Experimental sarcomatoid carcinoma pemphigus undifferentiated carcinoma acute myeloid leukemia mammary neoplasms, animal nasopharyngeal carcinoma plasma cell myeloma amyotrophic lateral sclerosis lymphoplasmacytic lymphoma osteoarthritis ovarian cancer invasive ductal breast carcinoma myopathy osteoarthritis susceptibility 1

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.