3FEY

Crystal structure of the CBC-importin alpha 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)
B	d3feyb_	Alpha and beta proteins (a+b)	Ferredoxin-like	RNA-binding domain, RBD, aka RNA recognition motif (RRM)	Canonical RBD	CBP20, 20KDa nuclear cap-binding protein	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d3feyc1	All alpha proteins	alpha-alpha superhelix	ARM repeat	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d3feyc2	Artifacts	Tags	Tags	Tags	N-terminal Tags	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)
A	SCOP2B Superfamily	ARM repeat-like	8042374	3000116	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	ARM repeat-like	8042371	3000116	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	ARM repeat-like	8042373	3000116	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	RNA-binding domain RBD	8042382	3000110	SCOP2B (2022-06-29)
C	SCOP2 Family	Armadillo repeat	8081892	4001272	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	ARM repeat-like	8081893	3000116	SCOP2 (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	MIF4G	e3feyA5	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: MIF4G	ECOD (1.6)
A	MIF4G_like	e3feyA6	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: MIF4G_like	ECOD (1.6)
A	MIF4G_like_2	e3feyA3	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: MIF4G_like_2	ECOD (1.6)
B	RRM_1_6	e3feyB1	A: a+b two layers	X: Alpha-beta plaits	H: RNA-binding domain, RBD (From Topology)	T: RNA-binding domain, RBD	F: RRM_1_6	ECOD (1.6)
C	Arm	e3feyC1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: Arm	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.25.40.180	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat		CATH (4.3.0)
B	3.30.70.330	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	RRM (RNA recognition motif) domain	CATH (4.3.0)
C	1.25.10.10	Mainly Alpha	Alpha Horseshoe	Leucine-rich Repeat Variant	Leucine-rich Repeat Variant	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF09088	MIF4G like (MIF4G_like)	MIF4G like	-	Repeat
A	PF09090	MIF4G like (MIF4G_like_2)	MIF4G like	-	Repeat
A	PF02854	MIF4G domain (MIF4G)	MIF4G domain	-	Repeat
B	PF00076	RNA recognition motif (RRM_1)	RNA recognition motif	The RRM motif (a.k.a. RRM, RBD, or RNP domain) is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and pro ...	The RRM motif (a.k.a. RRM, RBD, or RNP domain) is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and protein components of snRNPs. The motif also appears in a few single stranded DNA binding proteins. The RRM structure consists of four strands and two helices arranged in an alpha/beta sandwich, with a third helix present during RNA binding in some cases The C-terminal beta strand (4th strand) and final helix are hard to align and have been omitted in the SEED alignment The LA proteins (Swiss:P05455) have an N terminal rrm which is included in the seed. There is a second region towards the C terminus that has some features characteristic of a rrm but does not appear to have the important structural core of a rrm. The LA proteins (Swiss:P05455) are one of the main autoantigens in Systemic lupus erythematosus (SLE), an autoimmune disease.	Domain
C	PF00514	Armadillo/beta-catenin-like repeat (Arm)	Armadillo/beta-catenin-like repeat	-	Repeat
C	PF01749	Importin beta binding domain (IBB)	Importin beta binding domain	-	Repeat
C	PF16186	Atypical Arm repeat (Arm_3)	Atypical Arm repeat	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Nuclear cap-binding protein subunit 1	RNA binding binding organic cyclic compound binding nucleic acid binding RNA cap binding mRNA binding RNA 7-methylguanosine cap binding molecular adaptor activity	regulation of biological process regulation of growth regulation of cellular process regulation of cellular component organization positive regulation of biological process biological regulation growth positive regulation of cell growth regulation of cell growth cell growth cellular component organization positive regulation of growth cellular process cellular component organization or biogenesis regulation of biological process regulation of growth regulation of cellular process regulation of cellular component organization positive regulation of biological process biological regulation growth positive regulation of cell growth regulation of cell growth cell growth cellular component organization positive regulation of growth cellular process cellular component organization or biogenesis positive regulation of cellular process mRNA processing regulation of primary metabolic process nucleobase-containing compound metabolic process regulation of nitrogen compound metabolic process positive regulation of metabolic process regulation of RNA metabolic process heterocycle metabolic process organic substance biosynthetic process positive regulation of macromolecule metabolic process RNA 3'-end processing regulation of nucleobase-containing compound metabolic process RNA processing positive regulation of nucleobase-containing compound metabolic process cellular metabolic process mRNA 3'-end processing regulation of mRNA 3'-end processing positive regulation of mRNA metabolic process cellular nitrogen compound metabolic process primary metabolic process regulation of cellular metabolic process positive regulation of RNA metabolic process organic cyclic compound metabolic process biosynthetic process positive regulation of mRNA processing nucleic acid catabolic process metabolic process macromolecule metabolic process regulation of metabolic process cellular biosynthetic process RNA metabolic process positive regulation of cellular metabolic process organic substance metabolic process nitrogen compound metabolic process regulation of mRNA processing regulation of macromolecule metabolic process gene expression mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process positive regulation of nitrogen compound metabolic process positive regulation of mRNA 3'-end processing regulation of mRNA metabolic process cellular aromatic compound metabolic process negative regulation of biological process negative regulation of cellular metabolic process post-transcriptional regulation of gene expression negative regulation of cellular process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of metabolic process regulatory ncRNA-mediated post-transcriptional gene silencing negative regulation of cellular biosynthetic process regulatory ncRNA-mediated gene silencing regulation of cellular biosynthetic process regulation of gene expression negative regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process post-transcriptional gene silencing regulation of macromolecule biosynthetic process cellular localization nitrogen compound transport nucleocytoplasmic transport transport nuclear transport mRNA transport localization mRNA export from nucleus establishment of localization in cell RNA localization nuclear export nucleobase-containing compound transport RNA transport organic substance transport nucleic acid transport intracellular transport establishment of localization RNA export from nucleus establishment of RNA localization macromolecule localization organonitrogen compound metabolic process cap-dependent translational initiation organonitrogen compound biosynthetic process translation cytoplasmic translation cytoplasmic translational initiation translational initiation protein metabolic process positive regulation of molecular function regulation of molecular function positive regulation of RNA binding regulation of binding positive regulation of binding regulation of RNA binding catabolic process macromolecule catabolic process cellular catabolic process RNA catabolic process aromatic compound catabolic process cellular nitrogen compound catabolic process organic cyclic compound catabolic process nucleobase-containing compound catabolic process heterocycle catabolic process organic substance catabolic process RNA splicing ribonucleoprotein complex biogenesis protein-RNA complex assembly cellular component biogenesis spliceosomal complex assembly protein-RNA complex organization cellular component assembly protein-containing complex assembly protein-containing complex organization RNA splicing, via transesterification reactions mRNA splicing, via spliceosome RNA splicing, via transesterification reactions with bulged adenosine as nucleophile histone mRNA metabolic process regulation of translational initiation regulation of protein metabolic process regulation of translation mRNA transcription by RNA polymerase II mRNA transcription RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II nucleobase-containing compound biosynthetic process heterocycle biosynthetic process aromatic compound biosynthetic process organic cyclic compound biosynthetic process regulatory ncRNA processing primary miRNA processing miRNA processing positive regulation of macromolecule biosynthetic process regulation of transcription by RNA polymerase II regulation of DNA-templated transcription elongation regulation of transcription elongation by RNA polymerase II positive regulation of transcription by RNA polymerase II regulation of DNA-templated transcription transcription elongation by RNA polymerase II positive regulation of DNA-templated transcription positive regulation of transcription elongation by RNA polymerase II positive regulation of biosynthetic process positive regulation of DNA-templated transcription, elongation regulation of RNA biosynthetic process DNA-templated transcription elongation positive regulation of RNA biosynthetic process positive regulation of cellular biosynthetic process 7-methylguanosine RNA capping RNA capping 7-methylguanosine mRNA capping RNA 5'-end processing nuclear-transcribed mRNA catabolic process, nonsense-mediated decay mRNA catabolic process nuclear-transcribed mRNA catabolic process biological process involved in interspecies interaction between organisms response to stimulus response to other organism defense response defense response to symbiont response to external stimulus response to biotic stimulus defense response to virus defense response to other organism response to stress response to external biotic stimulus response to virus miRNA-mediated post-transcriptional gene silencing alternative mRNA splicing, via spliceosome snRNA export from nucleus ncRNA export from nucleus snRNA transport regulation of mRNA splicing, via spliceosome positive regulation of mRNA splicing, via spliceosome regulation of RNA splicing positive regulation of gene expression positive regulation of RNA splicing	membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle cytosol protein-containing complex RNA cap binding complex intracellular protein-containing complex nucleus membrane-enclosed lumen membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle cytosol protein-containing complex RNA cap binding complex intracellular protein-containing complex nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen nuclear cap binding complex ribonucleoprotein complex
B	Nuclear cap-binding protein subunit 2	RNA binding binding organic cyclic compound binding nucleic acid binding RNA cap binding DNA binding snRNA binding mRNA binding RNA 7-methylguanosine cap binding	regulation of cellular process mRNA processing regulation of primary metabolic process nucleobase-containing compound metabolic process regulation of nitrogen compound metabolic process positive regulation of metabolic process regulation of RNA metabolic process heterocycle metabolic process organic substance biosynthetic process positive regulation of macromolecule metabolic process RNA 3'-end processing regulation of nucleobase-containing compound metabolic process RNA processing regulation of biological process regulation of cellular process mRNA processing regulation of primary metabolic process nucleobase-containing compound metabolic process regulation of nitrogen compound metabolic process positive regulation of metabolic process regulation of RNA metabolic process heterocycle metabolic process organic substance biosynthetic process positive regulation of macromolecule metabolic process RNA 3'-end processing regulation of nucleobase-containing compound metabolic process RNA processing regulation of biological process positive regulation of nucleobase-containing compound metabolic process cellular metabolic process mRNA 3'-end processing regulation of mRNA 3'-end processing positive regulation of mRNA metabolic process cellular nitrogen compound metabolic process primary metabolic process regulation of cellular metabolic process positive regulation of RNA metabolic process organic cyclic compound metabolic process biosynthetic process positive regulation of mRNA processing nucleic acid catabolic process metabolic process macromolecule metabolic process regulation of metabolic process cellular biosynthetic process positive regulation of biological process RNA metabolic process positive regulation of cellular metabolic process organic substance metabolic process nitrogen compound metabolic process positive regulation of cellular process regulation of mRNA processing biological regulation regulation of macromolecule metabolic process gene expression mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process positive regulation of nitrogen compound metabolic process cellular process positive regulation of mRNA 3'-end processing regulation of mRNA metabolic process cellular aromatic compound metabolic process RNA splicing RNA splicing, via transesterification reactions mRNA cis splicing, via spliceosome mRNA splicing, via spliceosome RNA splicing, via transesterification reactions with bulged adenosine as nucleophile regulation of localization cellular localization nitrogen compound transport nucleocytoplasmic transport transport positive regulation of nucleocytoplasmic transport nuclear transport positive regulation of nucleobase-containing compound transport localization positive regulation of RNA export from nucleus establishment of localization in cell positive regulation of intracellular transport RNA localization nuclear export nucleobase-containing compound transport regulation of intracellular transport RNA transport regulation of transport organic substance transport regulation of nucleobase-containing compound transport regulation of RNA export from nucleus nucleic acid transport intracellular transport regulation of nucleocytoplasmic transport establishment of localization RNA export from nucleus establishment of RNA localization positive regulation of transport regulation of cellular localization macromolecule localization negative regulation of biological process negative regulation of cellular metabolic process post-transcriptional regulation of gene expression negative regulation of cellular process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of metabolic process regulatory ncRNA-mediated post-transcriptional gene silencing negative regulation of cellular biosynthetic process regulatory ncRNA-mediated gene silencing regulation of cellular biosynthetic process regulation of gene expression negative regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process post-transcriptional gene silencing regulation of macromolecule biosynthetic process mRNA transport mRNA export from nucleus organonitrogen compound metabolic process cap-dependent translational initiation organonitrogen compound biosynthetic process translation cytoplasmic translation cytoplasmic translational initiation translational initiation protein metabolic process histone mRNA metabolic process regulation of translational initiation regulation of protein metabolic process regulation of translation mRNA transcription by RNA polymerase II mRNA transcription RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II nucleobase-containing compound biosynthetic process heterocycle biosynthetic process aromatic compound biosynthetic process organic cyclic compound biosynthetic process regulatory ncRNA processing primary miRNA processing miRNA processing positive regulation of macromolecule biosynthetic process regulation of transcription by RNA polymerase II regulation of DNA-templated transcription elongation regulation of transcription elongation by RNA polymerase II positive regulation of transcription by RNA polymerase II regulation of DNA-templated transcription transcription elongation by RNA polymerase II positive regulation of DNA-templated transcription positive regulation of transcription elongation by RNA polymerase II positive regulation of biosynthetic process positive regulation of DNA-templated transcription, elongation regulation of RNA biosynthetic process DNA-templated transcription elongation positive regulation of RNA biosynthetic process positive regulation of cellular biosynthetic process nuclear-transcribed mRNA catabolic process, nonsense-mediated decay cellular catabolic process RNA catabolic process mRNA catabolic process aromatic compound catabolic process cellular nitrogen compound catabolic process nucleobase-containing compound catabolic process heterocycle catabolic process catabolic process macromolecule catabolic process nuclear-transcribed mRNA catabolic process organic cyclic compound catabolic process organic substance catabolic process miRNA-mediated post-transcriptional gene silencing alternative mRNA splicing, via spliceosome snRNA export from nucleus ncRNA export from nucleus snRNA transport	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol protein-containing complex RNA cap binding complex intracellular protein-containing complex membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm intracellular anatomical structure cytoplasm cellular anatomical entity cytosol protein-containing complex RNA cap binding complex intracellular protein-containing complex membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen nuclear cap binding complex
C	Importin subunit alpha-2	histone deacetylase binding protein binding binding enzyme binding RNA binding organic cyclic compound binding nucleic acid binding nuclear localization sequence binding signal sequence binding peptide binding nuclear import signal receptor activity nucleocytoplasmic carrier activity molecular carrier activity	regulation of DNA recombination regulation of cellular process regulation of primary metabolic process nucleobase-containing compound metabolic process regulation of nitrogen compound metabolic process organic substance metabolic process heterocycle metabolic process nitrogen compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological process DNA recombination cellular metabolic process biological regulation cellular nitrogen compound metabolic process regulation of DNA recombination regulation of cellular process regulation of primary metabolic process nucleobase-containing compound metabolic process regulation of nitrogen compound metabolic process organic substance metabolic process heterocycle metabolic process nitrogen compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological process DNA recombination cellular metabolic process biological regulation cellular nitrogen compound metabolic process primary metabolic process regulation of cellular metabolic process DNA metabolic process regulation of macromolecule metabolic process nucleic acid metabolic process organic cyclic compound metabolic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process cellular aromatic compound metabolic process regulation of DNA metabolic process protein localization establishment of protein localization cellular localization nitrogen compound transport nucleocytoplasmic transport transport nuclear transport organic substance transport intracellular transport protein localization to nucleus establishment of localization localization import into nucleus establishment of protein localization to organelle protein transport cellular macromolecule localization macromolecule localization protein localization to organelle establishment of localization in cell protein import into nucleus intracellular protein transport regulation of viral process regulation of viral life cycle positive regulation of viral life cycle positive regulation of viral process viral process positive regulation of biological process viral life cycle NLS-bearing protein import into nucleus viral penetration into host nucleus entry of viral genome into host nucleus through nuclear pore complex via importin intracellular transport of virus transport of virus	protein-containing complex nucleocytoplasmic transport complex NLS-dependent protein nuclear import complex membrane cellular anatomical entity membrane-bounded organelle intracellular anatomical structure nuclear membrane nucleus intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope organelle protein-containing complex nucleocytoplasmic transport complex NLS-dependent protein nuclear import complex membrane cellular anatomical entity membrane-bounded organelle intracellular anatomical structure nuclear membrane nucleus intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope organelle nuclear envelope organelle membrane cytoplasm cytosol membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen organelle subcompartment endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum endoplasmic reticulum membrane host cellular component host cell Golgi membrane Golgi apparatus bounding membrane of organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR016024	Armadillo-type fold	Homologous Superfamily
A	IPR015172	MIF4G-like, type 1	Domain
A	IPR027159	Nuclear cap-binding protein subunit 1	Family
A	IPR015174	MIF4G-like, type 2	Domain
A	IPR003890	MIF4G-like, type 3	Domain
B	IPR034148	NCBP2, RNA recognition motif	Domain
B	IPR000504	RNA recognition motif domain	Domain
B	IPR012677	Nucleotide-binding alpha-beta plait domain superfamily	Homologous Superfamily
B	IPR035979	RNA-binding domain superfamily	Homologous Superfamily
B	IPR027157	Nuclear cap-binding protein subunit 2	Family
C	IPR016024	Armadillo-type fold	Homologous Superfamily
C	IPR000225	Armadillo	Repeat
C	IPR011989	Armadillo-like helical	Homologous Superfamily
C	IPR024931	Importin subunit alpha	Family
C	IPR036975	Importin-alpha, importin-beta-binding domain superfamily	Homologous Superfamily
C	IPR002652	Importin-alpha, importin-beta-binding domain	Domain
C	IPR032413	Atypical Arm repeat	Repeat

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q09161	Barrett esophagus esophageal adenocarcinoma malignant ependymoma myopathy thyroid gland carcinoma breast cancer Hashimoto thyroiditis malignant mesothelioma non-small cell lung carcinoma tuberculosis breast carcinoma hypothyroidism medulloblastoma pancreatic intraductal papillary-mucinous carcinoma
B	Pharos: P52298	astrocytic tumor lung adenocarcinoma myopathy breast cancer lung cancer non-small cell lung carcinoma breast carcinoma medulloblastoma ovarian cancer
C	Pharos: P52292	lung adenocarcinoma acute myeloid leukemia IgA glomerulonephritis peripheral arterial disease Adenocarcinoma of Lung psoriasis non-small cell lung carcinoma

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.