3GJ8

Crystal structure of human RanGDP-Nup153ZnF34 complex

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)
A	d3gj8a_	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	G proteins	Ran	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d3gj8c_	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	G proteins	Ran	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d3gj8b_	Small proteins	Rubredoxin-like	Ran binding protein zinc finger-like	Ran binding protein zinc finger-like	Nuclear pore complex protein nup153	rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
D	d3gj8d_	Small proteins	Rubredoxin-like	Ran binding protein zinc finger-like	Ran binding protein zinc finger-like	Nuclear pore complex protein nup153	rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	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)
A	Ras	e3gj8A1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ras	ECOD (1.6)
C	Ras	e3gj8C1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ras	ECOD (1.6)
B	zf-RanBP	e3gj8B1	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: zf-RanBP	ECOD (1.6)
D	zf-RanBP	e3gj8D1	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: zf-RanBP	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	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
A, C	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
B, D	PF00641	Zn-finger in Ran binding protein and others (zf-RanBP)	Zn-finger in Ran binding protein and others	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C	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 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 gamete generation male gamete generation cell differentiation anatomical structure development germ cell development nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid 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 cellular 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 multicellular organismal process 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 organelle organelle envelope intracellular anatomical structure organelle nuclear envelope nucleus intracellular membrane-bounded organelle endomembrane system membrane cellular anatomical entity protein-containing complex nucleocytoplasmic transport complex RNA nuclear export complex membrane-bounded organelle intracellular organelle organelle envelope intracellular anatomical structure organelle nuclear envelope nucleus intracellular membrane-bounded organelle endomembrane system 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
B, D	Nuclear pore complex protein Nup153	small GTPase binding protein binding binding enzyme binding GTPase binding protein-containing complex binding chromatin binding nuclear localization sequence binding signal sequence binding peptide binding protein-membrane adaptor activity protein-macromolecule adaptor activity molecular adaptor activity DNA binding small GTPase binding protein binding binding enzyme binding GTPase binding protein-containing complex binding chromatin binding nuclear localization sequence binding signal sequence binding peptide binding protein-membrane adaptor activity protein-macromolecule adaptor activity molecular adaptor activity DNA binding double-stranded DNA binding organic cyclic compound binding nucleic acid binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding structural molecule activity structural constituent of nuclear pore identical protein binding	RNA transport nitrogen compound transport transport organic substance transport nucleic acid transport mRNA transport establishment of localization localization establishment of RNA localization macromolecule localization RNA localization nucleobase-containing compound transport protein localization establishment of protein localization RNA transport nitrogen compound transport transport organic substance transport nucleic acid transport mRNA transport establishment of localization localization establishment of RNA localization macromolecule localization RNA localization nucleobase-containing compound transport 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 cellular process intracellular protein transport RNA export from nucleus nuclear export regulation of localization negative regulation of RNA export from nucleus negative regulation of nucleocytoplasmic transport regulation of cellular process negative regulation of biological process negative regulation of transport negative regulation of cellular process regulation of intracellular transport negative regulation of intracellular transport regulation of biological process regulation of transport negative regulation of nucleobase-containing compound transport regulation of nucleobase-containing compound transport regulation of RNA export from nucleus biological regulation regulation of nucleocytoplasmic transport regulation of cellular localization nuclear pore organization protein-containing complex organization pore complex assembly cellular component organization cellular component biogenesis nuclear pore complex assembly nucleus organization organelle organization cellular component assembly protein-containing complex assembly cellular component organization or biogenesis	membrane cellular anatomical entity membrane-bounded organelle intracellular organelle organelle envelope intracellular anatomical structure organelle nuclear envelope nucleus intracellular membrane-bounded organelle endomembrane system nuclear membrane organelle membrane membrane-enclosed lumen membrane cellular anatomical entity membrane-bounded organelle intracellular organelle organelle envelope intracellular anatomical structure organelle nuclear envelope nucleus intracellular membrane-bounded organelle endomembrane system nuclear membrane organelle membrane membrane-enclosed lumen intracellular organelle lumen organelle lumen nuclear periphery nuclear lumen protein-containing complex nuclear protein-containing complex nuclear pore nuclear pore nuclear basket nucleoplasmic side of nuclear pore inclusion body nuclear inclusion body nuclear outer membrane-endoplasmic reticulum membrane network annulate lamellae

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, C	IPR002041	Ran GTPase	Family
A, C	IPR001806	Small GTPase	Family
A, C	IPR005225	Small GTP-binding protein domain	Domain
B, D	IPR013913	Nucleoporin Nup153, N-terminal	Domain
B, D	IPR026054	Nuclear pore complex protein	Family
B, D	IPR036443	Zinc finger, RanBP2-type superfamily	Homologous Superfamily
B, D	IPR018892	Retro-transposon transporting motif	Conserved Site
B, D	IPR001876	Zinc finger, RanBP2-type	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, C	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.