3ZJY | pdb_00003zjy

Crystal Structure of Importin 13 - RanGTP - eIF1A 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)
F	SCOP2B Superfamily	Ras-like P-loop GTPases	8057412	3002022	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Ras-like P-loop GTPases	8057412	3002022	SCOP2B (2022-06-29)
A	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)
C	HSP90,HATPase_c_3	e3zjyC1	A: alpha bundles	X: LidA	H: LidA	T: LidA	F: HSP90,HATPase_c_3	ECOD (develop294)
G	Acyl-CoA_dh_1	e3zjyG1	A: alpha bundles	X: CCHHC domain	H: CCHHC domain	T: CCHHC domain	F: Acyl-CoA_dh_1	ECOD (develop294)
E	tRNA-synt_1b	e3zjyE1	A: alpha bundles	X: YrdC/RibB	H: YrdC/RibB	T: YrdC/RibB	F: tRNA-synt_1b	ECOD (develop294)
B	FKBP_C	e3zjyB2	A: alpha bundles	X: Subtilisin-like	H: Subtilisin-like	T: Subtilisin-like	F: FKBP_C	ECOD (develop294)
F	SmpA_OmlA	e3zjyF1	A: alpha bundles	X: beta-Grasp	H: HTH	T: winged helix domain	F: SmpA_OmlA	ECOD (develop294)
D	SmpA_OmlA	e3zjyD1	A: alpha bundles	X: beta-Grasp	H: HTH	T: winged helix domain	F: SmpA_OmlA	ECOD (develop294)
A	SmpA_OmlA	e3zjyA1	A: alpha bundles	X: beta-Grasp	H: HTH	T: winged helix domain	F: SmpA_OmlA	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	2.40.50.140	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	Nucleic acid-binding proteins	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)
D	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
A	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
C	PF01176	Translation initiation factor 1A / IF-1 (eIF-1a)	Translation initiation factor 1A / IF-1	This family includes both the eukaryotic translation factor eIF-1A and the bacterial translation initiation factor IF-1.	Domain
B, E, G	PF24138	Transportin-3/Importin-13 second TPR domain (TPR_TNPO3_IPO13_2nd)	Transportin-3/Importin-13 second TPR domain	-	Repeat
B, E, G	PF24139	Transportin-3/Importin-13 fourth TPR domain (TPR_TNPO3_IPO13_4th)	Transportin-3/Importin-13 fourth TPR domain	-	Repeat
B, E, G	PF08389	Exportin 1-like protein (Xpo1)	Exportin 1-like protein	-	Repeat
B, E, G	PF18806	Importin 13 repeat (Importin_rep_3)	Importin 13 repeat	-	Repeat
B, E, G	PF18773	Importin 13 repeat (Importin_rep)	Importin 13 repeat	-	Repeat
B, E, G	PF18786	Importin 13 repeat (Importin_rep_2)	Importin 13 repeat	-	Repeat
B, E, G	PF24140	Transportin-3/Importin-13 third TPR domain (TPR_TNPO3_IPO13_3rd)	Transportin-3/Importin-13 third TPR domain	-	Repeat
B, E, G	PF03810	Importin-beta N-terminal domain (IBN_N)	Importin-beta N-terminal domain	-	Repeat
A, D, 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, 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
C	EUKARYOTIC TRANSLATION INITIATION FACTOR 1A, X-CHROMOSOMAL	translation factor activity translation initiation factor activity RNA binding binding nucleic acid binding translation factor activity, RNA binding tRNA binding	primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process biosynthetic process translational initiation metabolic process cellular process protein metabolic process macromolecule metabolic process ribonucleoprotein complex biogenesis organelle assembly membraneless organelle assembly primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process biosynthetic process translational initiation metabolic process cellular process protein metabolic process macromolecule metabolic process ribonucleoprotein complex biogenesis organelle assembly membraneless organelle assembly cellular component biogenesis cellular component organization ribosome biogenesis organelle organization cellular component assembly cellular component organization or biogenesis ribosome assembly	protein-containing complex cellular anatomical structure intracellular anatomical structure eukaryotic 43S preinitiation complex ribonucleoprotein complex cytosolic translation preinitiation complex cytoplasm multi-eIF complex synapse cell junction cytosol eukaryotic 48S preinitiation complex
B, E, G	IMPORTIN-13	small GTPase binding protein binding binding enzyme binding GTPase binding	establishment of protein localization cellular localization nucleocytoplasmic transport transport nuclear transport intracellular transport protein localization to nucleus establishment of localization localization import into nucleus establishment of protein localization to organelle protein transport establishment of localization in cell macromolecule localization protein localization to organelle establishment of protein localization cellular localization nucleocytoplasmic transport transport nuclear transport intracellular transport protein localization to nucleus establishment of localization localization import into nucleus establishment of protein localization to organelle protein transport establishment of localization in cell macromolecule localization protein localization to organelle protein import into nucleus cellular process intracellular protein localization intracellular protein transport	cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle
A, D, F	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
C	IPR018104	Translation initiation factor 1A (eIF-1A), conserved site	Conserved Site
C	IPR012340	Nucleic acid-binding, OB-fold	Homologous Superfamily
C	IPR006196	RNA-binding domain, S1, IF1 type	Domain
C	IPR001253	Translation initiation factor 1A (eIF-1A)	Family
B, E, G	IPR051345	Importin beta-like nuclear transport receptors	Family
B, E, G	IPR016024	Armadillo-type fold	Homologous Superfamily
B, E, G	IPR013598	Exportin-1/Importin-beta-like	Domain
B, E, G	IPR040520	Importin 13 repeat	Repeat
B, E, G	IPR040944	Importin 13 repeat 2	Repeat
B, E, G	IPR057942	Transportin-3/Importin-13, third TPR domain	Repeat
B, E, G	IPR001494	Importin-beta, N-terminal domain	Domain
B, E, G	IPR011989	Armadillo-like helical	Homologous Superfamily
B, E, G	IPR058537	Transportin-3/Importin-13, fourth TPR domain	Repeat
B, E, G	IPR057941	Transportin-3/Importin-13, second TPR domain	Repeat
B, E, G	IPR040709	Importin 13, repeat 1	Repeat
A, D, F	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, D, F	IPR002041	Ran GTPase	Family
A, D, F	IPR005225	Small GTP-binding domain	Domain
A, D, F	IPR001806	Small GTPase	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C	Pharos: P47813	uveal melanoma Neoplasm Metastasis atypical teratoid rhabdoid tumor ovarian cancer sarcoidosis breast cancer ocular melanoma pancreatic intraductal papillary-mucinous neoplasm thyroid gland papillary carcinoma lung cancer osteosarcoma psoriasis
B, E, G	Pharos: O94829	attention deficit hyperactivity disorder, inattentive type
A, D, 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 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.