5DLQ | pdb_00005dlq

Crystal structure of RanGTP-Exportin 4-eIF5A complex

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B [auth C]	SCOP2B Superfamily	Ras-like P-loop GTPases	8057412	3002022	SCOP2B (2022-06-29)
E [auth D]	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)
D [auth A]	HTH_65	e5dlqA1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: ARM repeat	T: ARM repeat	F: HTH_65	ECOD (v294.1)
A [auth B]	CRM1_C, PF28490	e5dlqB1	A: a/b three-layered sandwiches	X: Spectrin repeat-like	H: ARM repeat	T: ARM repeat	F: CRM1_C, PF28490	ECOD (v294.1)
C [auth F]	Cadherin	e5dlqF1	A: a/b three-layered sandwiches	X: Alkaline phosphatase-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: Cadherin	ECOD (v294.1)
F [auth E]	Cadherin	e5dlqE1	A: a/b three-layered sandwiches	X: Alkaline phosphatase-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: Cadherin	ECOD (v294.1)
B [auth C]	Cadherin	e5dlqC1	A: a/b three-layered sandwiches	X: Alkaline phosphatase-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: Cadherin	ECOD (v294.1)
E [auth D]	Cadherin	e5dlqD1	A: a/b three-layered sandwiches	X: Alkaline phosphatase-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: Cadherin	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D [auth A]	1.25.10.10	Mainly Alpha	Alpha Horseshoe	Leucine-rich Repeat Variant	Leucine-rich Repeat Variant	CATH (utative)
A [auth B]	1.25.10.10	Mainly Alpha	Alpha Horseshoe	Leucine-rich Repeat Variant	Leucine-rich Repeat Variant	CATH (utative)
C [auth F]	2.30.30.30	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
C [auth F]	2.40.50.140	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	Nucleic acid-binding proteins	CATH (4.3.0)
F [auth E]	2.30.30.30	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
F [auth E]	2.40.50.140	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	Nucleic acid-binding proteins	CATH (4.3.0)
B [auth C]	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
E [auth D]	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 [auth B], D [auth A]	PF08767	CRM1 C terminal (CRM1_C)	CRM1 C terminal	-	Repeat
C [auth F], F [auth E]	PF21485	Translation initiation factor 5A-like, N-terminal (IF5A-like_N)	Translation initiation factor 5A-like, N-terminal	This is the N-terminal domain of Translation initiation factor 5A from eukaryotes and archaea, which has a SH2-like fold. These proteins are involved in translation elongation and eIF5A is specifically required to promote peptide-bond formation betwe ...	This is the N-terminal domain of Translation initiation factor 5A from eukaryotes and archaea, which has a SH2-like fold. These proteins are involved in translation elongation and eIF5A is specifically required to promote peptide-bond formation between consecutive proline residues [1-5]. This entry also includes Woronin body major protein Hex1, which is similar to eIF5A.	Domain
C [auth F], F [auth E]	PF01287	Eukaryotic elongation factor 5A hypusine, DNA-binding OB fold (eIF-5a)	Eukaryotic elongation factor 5A hypusine, DNA-binding OB fold	eIF5A, previously thought to be an initiation factor, has been shown to be required for peptide chain elongation in yeast [1].	Domain
B [auth C], E [auth D]	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, motili ...	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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth B], D [auth A]	Exportin-4	small GTPase binding protein binding binding enzyme binding GTPase binding nucleocytoplasmic carrier activity nuclear export signal receptor activity molecular carrier activity	ribonucleotide catabolic process pyridine nucleotide catabolic process aerobic respiration oxoacid metabolic process carbohydrate catabolic process carbohydrate derivative metabolic process organophosphate catabolic process nucleoside phosphate catabolic process organic acid metabolic process nucleobase-containing compound metabolic process glycolytic process phosphate-containing compound metabolic process pyridine-containing compound metabolic process small molecule metabolic process ribonucleotide catabolic process pyridine nucleotide catabolic process aerobic respiration oxoacid metabolic process carbohydrate catabolic process carbohydrate derivative metabolic process organophosphate catabolic process nucleoside phosphate catabolic process organic acid metabolic process nucleobase-containing compound metabolic process glycolytic process phosphate-containing compound metabolic process pyridine-containing compound metabolic process small molecule metabolic process purine ribonucleotide catabolic process phosphorus metabolic process nucleoside phosphate metabolic process nicotinamide nucleotide metabolic process pyruvate metabolic process purine nucleoside diphosphate metabolic process primary metabolic process purine-containing compound catabolic process nucleotide metabolic process nucleobase-containing compound catabolic process nucleoside diphosphate metabolic process purine nucleoside diphosphate catabolic process nucleoside diphosphate catabolic process metabolic process nucleoside triphosphate metabolic process monocarboxylic acid metabolic process purine ribonucleotide metabolic process pyridine-containing compound catabolic process ribose phosphate metabolic process cellular respiration catabolic process ATP metabolic process energy derivation by oxidation of organic compounds purine nucleotide metabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process purine ribonucleoside triphosphate metabolic process ribonucleoside diphosphate metabolic process ribonucleoside diphosphate catabolic process nucleotide catabolic process purine nucleoside triphosphate metabolic process purine nucleotide catabolic process carbohydrate metabolic process carbohydrate derivative catabolic process ADP catabolic process carboxylic acid metabolic process generation of precursor metabolites and energy purine-containing compound metabolic process ADP metabolic process organophosphate metabolic process purine ribonucleoside diphosphate metabolic process cellular process purine ribonucleoside diphosphate catabolic process regulation of localization establishment of protein localization cellular localization regulation of cellular process regulation of protein localization nucleocytoplasmic transport transport positive regulation of nucleocytoplasmic transport nuclear transport positive regulation of biological process positive regulation of establishment of protein localization positive regulation of protein transport localization establishment of localization in cell positive regulation of intracellular transport intracellular protein localization nuclear export regulation of protein export from nucleus positive regulation of cellular process regulation of intracellular transport regulation of biological process regulation of transport biological regulation regulation of establishment of protein localization intracellular transport regulation of nucleocytoplasmic transport regulation of protein transport protein export from nucleus positive regulation of protein export from nucleus establishment of localization positive regulation of transport protein transport regulation of cellular localization macromolecule localization positive regulation of protein localization regulation of intracellular protein transport positive regulation of intracellular protein transport intracellular protein transport	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle protein-containing complex nucleus nuclear protein-containing complex intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope organelle nuclear envelope cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle protein-containing complex nucleus nuclear protein-containing complex intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope organelle nuclear envelope nuclear pore membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen
C [auth F], F [auth E]	Eukaryotic translation initiation factor 5A-1	translation factor activity translation elongation factor activity RNA binding U6 snRNA binding snRNA binding binding nucleic acid binding ribonucleoprotein complex binding protein-containing complex binding ribosome binding	regulation of cellular process regulation of cellular component organization positive regulation of cellular component organization positive regulation of protein metabolic process positive regulation of biological process protein-containing complex disassembly positive regulation of translation protein biosynthetic process regulation of protein-containing complex disassembly positive regulation of macromolecule biosynthetic process regulation of primary metabolic process cellular component organization post-transcriptional regulation of gene expression positive regulation of metabolic process positive regulation of biosynthetic process regulation of cellular process regulation of cellular component organization positive regulation of cellular component organization positive regulation of protein metabolic process positive regulation of biological process protein-containing complex disassembly positive regulation of translation protein biosynthetic process regulation of protein-containing complex disassembly positive regulation of macromolecule biosynthetic process regulation of primary metabolic process cellular component organization post-transcriptional regulation of gene expression positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process translational termination cellular component organization or biogenesis protein metabolic process positive regulation of protein-containing complex disassembly positive regulation of cellular process cellular component disassembly regulation of biosynthetic process regulation of biological process protein-containing complex organization regulation of protein metabolic process regulation of translational termination biological regulation primary metabolic process regulation of macromolecule metabolic process translation gene expression macromolecule biosynthetic process regulation of gene expression biosynthetic process positive regulation of gene expression positive regulation of translational termination regulation of translation cellular process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of metabolic process cellular response to stimulus positive regulation of cell communication positive regulation of signal transduction response to stimulus signaling positive regulation of intrinsic apoptotic signaling pathway by p53 class mediator regulation of signal transduction regulation of programmed cell death regulation of intrinsic apoptotic signaling pathway intracellular signal transduction cell communication positive regulation of apoptotic signaling pathway positive regulation of response to stimulus regulation of intracellular signal transduction regulation of signal transduction by p53 class mediator positive regulation of signal transduction by p53 class mediator signal transduction intrinsic apoptotic signaling pathway regulation of signaling positive regulation of programmed cell death regulation of apoptotic process positive regulation of intracellular signal transduction signal transduction by p53 class mediator cell death positive regulation of apoptotic process apoptotic signaling pathway regulation of response to stimulus regulation of cell communication intrinsic apoptotic signaling pathway by p53 class mediator positive regulation of intrinsic apoptotic signaling pathway apoptotic process regulation of intrinsic apoptotic signaling pathway by p53 class mediator programmed cell death regulation of apoptotic signaling pathway positive regulation of signaling translational elongation regulation of translational elongation positive regulation of translational elongation cell surface receptor signaling pathway response to cytokine cytokine-mediated signaling pathway response to peptide cellular response to tumor necrosis factor response to chemical tumor necrosis factor-mediated signaling pathway cellular response to cytokine stimulus response to tumor necrosis factor positive regulation of DNA-templated transcription RNA metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process regulation of DNA-templated transcription cellular response to virus biological process involved in interspecies interaction between organisms response to other organism response to external stimulus response to external biotic stimulus response to virus response to biotic stimulus	cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle protein-containing complex nucleus nuclear protein-containing complex intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope organelle cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle protein-containing complex nucleus nuclear protein-containing complex intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope organelle nuclear envelope nuclear pore organelle subcompartment endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum organelle membrane endoplasmic reticulum membrane synapse cell junction annulate lamellae
B [auth C], E [auth D]	GTP-binding nuclear protein Ran	cell adhesion molecule binding cadherin binding protein binding binding protein-containing complex 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 cell adhesion molecule binding cadherin binding protein binding binding protein-containing complex 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 chromatin binding protein heterodimerization activity protein dimerization activity RNA 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	cellular localization establishment of protein localization nucleocytoplasmic transport transport nuclear transport intracellular transport protein export from nucleus establishment of localization localization protein transport establishment of localization in cell macromolecule localization cellular process intracellular protein localization cellular localization establishment of protein localization nucleocytoplasmic transport transport nuclear transport intracellular transport protein export from nucleus establishment of localization localization protein transport establishment of localization in cell macromolecule localization cellular process intracellular protein localization nuclear export intracellular protein transport viral process cell division protein-containing complex localization 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 regulation of protein localization positive regulation of nucleocytoplasmic transport positive regulation of biological process positive regulation of establishment of protein localization 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 intracellular transport regulation of biological process regulation of transport positive regulation of protein localization to nucleus biological regulation regulation of establishment of protein localization positive regulation of protein import into nucleus regulation of nucleocytoplasmic transport regulation of protein transport positive regulation of transport regulation of cellular localization positive regulation of protein localization regulation of intracellular protein transport positive regulation of intracellular protein transport 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 metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process nucleoside phosphate metabolic process ribose phosphate metabolic process purine nucleoside triphosphate metabolic process GTP metabolic process carbohydrate derivative metabolic process nucleotide metabolic process purine-containing compound metabolic process purine nucleotide metabolic process ribonucleotide metabolic process organophosphate metabolic process nucleobase-containing small molecule metabolic process purine ribonucleoside triphosphate metabolic process phosphate-containing compound metabolic process small molecule metabolic process nucleoside triphosphate metabolic process purine ribonucleotide metabolic process phosphorus metabolic process cellular response to stimulus cellular response to mineralocorticoid stimulus response to lipid response to stimulus response to endogenous stimulus 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 steroid hormone stimulus 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 nitrogen compound transport negative regulation of biological process post-transcriptional regulation of gene expression negative regulation of cellular process RNA localization nucleobase-containing compound transport negative regulation of macromolecule metabolic process regulation of biosynthetic process RNA transport negative regulation of metabolic process nucleic acid transport pre-miRNA export from nucleus regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulatory ncRNA-mediated post-transcriptional gene silencing RNA export from nucleus regulatory ncRNA-mediated gene silencing miRNA-mediated post-transcriptional gene silencing regulation of gene expression negative regulation of gene expression establishment of RNA localization biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process post-transcriptional gene silencing regulation of macromolecule biosynthetic process regulation of metabolic process establishment of organelle localization ribonucleoprotein complex biogenesis ribosomal subunit export from nucleus 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	cellular anatomical structure membrane 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 cellular anatomical structure membrane 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 membraneless organelle intracellular membraneless organelle chromatin chromosome 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

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth B], D [auth A]	IPR016024	Armadillo-type fold	Homologous Superfamily
A [auth B], D [auth A]	IPR011989	Armadillo-like helical	Homologous Superfamily
A [auth B], D [auth A]	IPR044189	Exportin 4/7-like	Family
A [auth B], D [auth A]	IPR014877	Exportin-1, C-terminal	Domain
C [auth F], F [auth E]	IPR014722	Large ribosomal subunit protein uL2, domain 2	Homologous Superfamily
C [auth F], F [auth E]	IPR001884	Translation elongation factor IF5A-like	Family
C [auth F], F [auth E]	IPR048670	Translation initiation factor 5A-like, N-terminal	Domain
C [auth F], F [auth E]	IPR008991	Translation protein SH3-like domain superfamily	Homologous Superfamily
C [auth F], F [auth E]	IPR012340	Nucleic acid-binding, OB-fold	Homologous Superfamily
C [auth F], F [auth E]	IPR019769	Translation initiation factor 5A, hypusine site	PTM
C [auth F], F [auth E]	IPR020189	Translation initiation factor 5A, C-terminal	Domain
B [auth C], E [auth D]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
B [auth C], E [auth D]	IPR002041	Ran GTPase	Family
B [auth C], E [auth D]	IPR005225	Small GTP-binding domain	Domain
B [auth C], E [auth D]	IPR001806	Small GTPase	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C [auth F], F [auth E]	Pharos: P63241	keloid Mammary Neoplasms, Experimental carcinoma sarcomatoid carcinoma undifferentiated carcinoma Hashimoto thyroiditis psoriasis uterine corpus leiomyoma hypothyroidism mammary neoplasms, animal vascular disease
B [auth C], E [auth D]	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 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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.