3W5K | pdb_00003w5k

Crystal structure of Snail1 and importin beta 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-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d3w5ka_	All alpha proteins	alpha-alpha superhelix	ARM repeat	Armadillo repeat	Importin beta	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	8038528	3000116	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		e3w5kA1	A: jelly-roll	X: Double-stranded beta-helix	H: Double-stranded beta-helix	T: Aminotran_1_2	F:	ECOD (20:10:01)
B		e3w5kB4	A: jelly-roll	X: Double-stranded beta-helix	H: Double-stranded beta-helix	T: Aminotran_1_2	F:	ECOD (20:10:01)
B		e3w5kB5	A: POZ domain	X: POZ domain	H: POZ domain	T: Sina_ZnF	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	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	PF00514	Armadillo/beta-catenin-like repeat (Arm)	Armadillo/beta-catenin-like repeat	-	Repeat
A	PF25574	Importin subunit beta-1-like, TPR repeats (TPR_IMB1)	Importin subunit beta-1-like, TPR repeats	-	Repeat
A	PF03810	Importin-beta N-terminal domain (IBN_N)	Importin-beta N-terminal domain	-	Repeat
B	PF13912	C2H2-type zinc finger (zf-C2H2_6)	C2H2-type zinc finger		Domain
B	PF00096	Zinc finger, C2H2 type (zf-C2H2)	Zinc finger, C2H2 type	The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger. #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C] Where X can be any amino acid, an ...	The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger. #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C] Where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Importin subunit beta-1	small GTPase binding protein binding binding enzyme binding GTPase binding protein domain specific binding Hsp90 protein binding heat shock protein binding RNA binding nucleic acid binding nuclear localization sequence binding signal sequence binding peptide binding nuclear import signal receptor activity small GTPase binding protein binding binding enzyme binding GTPase binding protein domain specific binding Hsp90 protein binding heat shock protein binding RNA binding nucleic acid binding nuclear localization sequence binding signal sequence binding peptide binding nuclear import signal receptor activity nucleocytoplasmic carrier activity molecular carrier activity importin-alpha family protein binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	cellular localization RNA import into nucleus RNA transport nitrogen compound transport nucleocytoplasmic transport transport nuclear transport nucleic acid transport intracellular transport establishment of localization localization import into nucleus establishment of RNA localization macromolecule localization establishment of localization in cell cellular localization RNA import into nucleus RNA transport nitrogen compound transport nucleocytoplasmic transport transport nuclear transport nucleic acid transport intracellular transport establishment of localization localization import into nucleus establishment of RNA localization macromolecule localization establishment of localization in cell cellular process RNA localization nucleobase-containing compound transport mitotic cell cycle cellular component organization mitotic chromosome movement towards spindle pole chromosome localization organelle localization mitotic sister chromatid segregation cell cycle cellular component organization or biogenesis chromosome segregation chromosome movement towards spindle pole cell cycle process mitotic nuclear division organelle fission chromosome organization sister chromatid segregation organelle organization nuclear division mitotic cell cycle process nuclear chromosome segregation microtubule-based movement microtubule-based process mitotic metaphase chromosome alignment metaphase chromosome alignment regulation of steroid biosynthetic process regulation of cholesterol biosynthetic process regulation of cellular process regulation of cholesterol metabolic process steroid metabolic process regulation of lipid metabolic process sterol metabolic process positive regulation of biological process cholesterol metabolic process lipid biosynthetic process alcohol metabolic process regulation of primary metabolic process positive regulation of metabolic process regulation of small molecule metabolic process positive regulation of biosynthetic process positive regulation of lipid metabolic process small molecule metabolic process steroid biosynthetic process positive regulation of cellular process regulation of biosynthetic process secondary alcohol biosynthetic process regulation of biological process regulation of alcohol biosynthetic process small molecule biosynthetic process regulation of steroid metabolic process cholesterol biosynthetic process positive regulation of cholesterol biosynthetic process biological regulation primary metabolic process secondary alcohol metabolic process positive regulation of steroid biosynthetic process biosynthetic process sterol biosynthetic process positive regulation of lipid biosynthetic process regulation of sterol biosynthetic process alcohol biosynthetic process positive regulation of cholesterol metabolic process positive regulation of steroid metabolic process metabolic process regulation of lipid biosynthetic process positive regulation of small molecule metabolic process regulation of metabolic process positive regulation of alcohol biosynthetic process positive regulation of sterol biosynthetic process lipid metabolic process establishment of organelle localization microtubule cytoskeleton organization spindle localization establishment of mitotic spindle localization establishment of spindle localization microtubule cytoskeleton organization involved in mitosis cytoskeleton organization establishment of protein localization protein localization to nucleus establishment of protein localization to organelle protein transport protein localization to organelle protein import into nucleus intracellular protein localization intracellular protein transport astral microtubule organization cytoplasmic microtubule organization supramolecular fiber organization spindle organization NLS-bearing protein import into nucleus membraneless organelle assembly cellular component biogenesis cellular component assembly organelle assembly spindle assembly mitotic spindle organization mitotic spindle assembly ribosomal protein import into nucleus	intracellular anatomical structure cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule intracellular organelle cellular anatomical structure organelle membraneless organelle cytoplasm supramolecular complex cytoplasmic stress granule protein-containing complex nucleocytoplasmic transport complex NLS-dependent protein nuclear import complex intracellular anatomical structure cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule intracellular organelle cellular anatomical structure organelle membraneless organelle cytoplasm supramolecular complex cytoplasmic stress granule protein-containing complex nucleocytoplasmic transport complex NLS-dependent protein nuclear import complex membrane membrane-bounded organelle organelle envelope nuclear envelope nucleus intracellular membrane-bounded organelle endomembrane system nuclear membrane organelle membrane extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space vesicle extracellular membrane-bounded organelle cytosol nuclear protein-containing complex nuclear pore membrane-enclosed lumen intracellular vesicle ficolin-1-rich granule intracellular organelle lumen organelle lumen cytoplasmic vesicle ficolin-1-rich granule lumen secretory granule secretory vesicle nucleoplasm nuclear lumen organelle subcompartment endoplasmic reticulum subcompartment endoplasmic reticulum endoplasmic reticulum tubular network vesicle lumen cytoplasmic vesicle lumen secretory granule lumen specific granule lumen specific granule
B	Zinc finger protein SNAI1	DNA-binding transcription factor activity, RNA polymerase II-specific DNA-binding transcription repressor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription repressor activity DNA-binding transcription factor activity DNA binding sequence-specific DNA binding binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding DNA-binding transcription factor activity, RNA polymerase II-specific DNA-binding transcription repressor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription repressor activity DNA-binding transcription factor activity DNA binding sequence-specific DNA binding binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding protein binding kinase binding enzyme binding E-box binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	developmental process multicellular organismal process cellular developmental process ossification cell differentiation cellular process osteoblast differentiation cellular response to stimulus regulation of biological process regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling canonical Wnt signaling pathway developmental process multicellular organismal process cellular developmental process ossification cell differentiation cellular process osteoblast differentiation cellular response to stimulus regulation of biological process regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling canonical Wnt signaling pathway biological regulation cell communication signal transduction Wnt signaling pathway epithelium migration tissue migration ameboidal-type cell migration epithelial cell migration cell migration cell motility regulation of epithelial to mesenchymal transition regulation of developmental process positive regulation of biological process positive regulation of epithelial to mesenchymal transition regulation of cell differentiation mesenchyme development positive regulation of developmental process positive regulation of cell differentiation anatomical structure development regulation of multicellular organismal process positive regulation of cellular process animal organ development tissue development epithelial to mesenchymal transition positive regulation of multicellular organismal process mesenchymal cell differentiation negative regulation of signaling negative regulation of intracellular signal transduction regulation of cellular response to stress negative regulation of biological process regulation of signal transduction DNA damage response, signal transduction by p53 class mediator intracellular signal transduction negative regulation of cell communication cellular response to stress regulation of intracellular signal transduction response to stress regulation of response to stress regulation of signal transduction by p53 class mediator negative regulation of cellular process negative regulation of DNA damage response, signal transduction by p53 class mediator regulation of DNA damage response, signal transduction by p53 class mediator negative regulation of signal transduction by p53 class mediator regulation of signaling negative regulation of response to stimulus signal transduction by p53 class mediator negative regulation of signal transduction regulation of response to stimulus DNA damage response regulation of cell communication signal transduction in response to DNA damage bicellular tight junction assembly regulation of bicellular tight junction assembly regulation of cellular component organization tight junction organization apical junction assembly regulation of cellular component biogenesis cellular component organization cellular component biogenesis regulation of cell junction assembly cell junction organization cellular component assembly cell junction assembly tight junction assembly cellular component organization or biogenesis cell-cell junction assembly cell-cell junction organization epithelium development epidermis development molting cycle process hair cycle epidermis morphogenesis morphogenesis of an epithelium tissue morphogenesis anatomical structure morphogenesis skin development skin epidermis development hair follicle development molting cycle hair cycle process hair follicle morphogenesis cell differentiation involved in embryonic placenta development placenta development reproductive process chordate embryonic development developmental process involved in reproduction embryo development in utero embryonic development trophoblast giant cell differentiation multicellular organism development embryonic placenta development embryo development ending in birth or egg hatching embryonic organ development heart development heart valve development aortic valve development circulatory system development heart valve morphogenesis semi-lunar valve development aortic valve morphogenesis system development connective tissue development skeletal system development cartilage morphogenesis animal organ morphogenesis cartilage development chromatin organization heterochromatin organization RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process positive regulation of locomotion regulation of cell motility positive regulation of cell migration regulation of locomotion positive regulation of cell motility regulation of cell migration locomotion positive regulation of DNA-templated transcription positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process pattern specification process left/right pattern formation regionalization regulation of cell differentiation involved in embryonic placenta development regulation of reproductive process negative regulation of cell differentiation involved in embryonic placenta development negative regulation of cell differentiation negative regulation of developmental process negative regulation of reproductive process negative regulation of RNA biosynthetic process transcription by RNA polymerase II negative regulation of nucleobase-containing compound metabolic process negative regulation of macromolecule metabolic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II negative regulation of metabolic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of RNA metabolic process regulation of intrinsic apoptotic signaling pathway in response to DNA damage regulation of programmed cell death regulation of intrinsic apoptotic signaling pathway negative regulation of apoptotic signaling pathway intrinsic apoptotic signaling pathway in response to DNA damage intrinsic apoptotic signaling pathway negative regulation of programmed cell death regulation of apoptotic process cell death negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage apoptotic signaling pathway negative regulation of intrinsic apoptotic signaling pathway negative regulation of apoptotic process apoptotic process programmed cell death regulation of apoptotic signaling pathway Notch signaling pathway endocardial cushion morphogenesis heart morphogenesis endocardial cushion development cardiac epithelial to mesenchymal transition epithelial to mesenchymal transition involved in endocardial cushion formation mesenchyme morphogenesis endocardial cushion formation anatomical structure formation involved in morphogenesis roof of mouth development regulation of steroid biosynthetic process negative regulation of small molecule metabolic process steroid metabolic process regulation of lipid metabolic process vitamin biosynthetic process lipid biosynthetic process negative regulation of lipid biosynthetic process vitamin D biosynthetic process regulation of small molecule metabolic process small molecule metabolic process regulation of vitamin metabolic process steroid biosynthetic process negative regulation of steroid metabolic process small molecule biosynthetic process regulation of steroid metabolic process vitamin D metabolic process regulation of vitamin D biosynthetic process vitamin metabolic process negative regulation of vitamin metabolic process fat-soluble vitamin biosynthetic process negative regulation of steroid biosynthetic process regulation of lipid biosynthetic process negative regulation of vitamin D biosynthetic process negative regulation of lipid metabolic process lipid metabolic process formation of primary germ layer mesoderm morphogenesis embryonic morphogenesis gastrulation mesoderm formation mesoderm development	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen pericentric heterochromatin intracellular membraneless organelle chromatin chromosome heterochromatin chromosomal region membraneless organelle chromosome, centromeric region nucleolus fibrillar center

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR016024	Armadillo-type fold	Homologous Superfamily
A	IPR058584	Importin subunit beta-1/Transportin-1-like, TPR repeats	Domain
A	IPR021133	HEAT, type 2	Repeat
A	IPR000225	Armadillo	Repeat
A	IPR001494	Importin-beta, N-terminal domain	Domain
A	IPR011989	Armadillo-like helical	Homologous Superfamily
A	IPR040122	Importin beta family	Family
B	IPR013087	Zinc finger C2H2-type	Domain
B	IPR036236	Zinc finger C2H2 superfamily	Homologous Superfamily
B	IPR050527	Snail/Krueppel_Znf	Unknown

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q14974	HIV infectious disease subependymal giant cell astrocytoma astrocytic tumor dental caries Hashimoto thyroiditis large cell medulloblastoma lymphoplasmacytic lymphoma osteosarcoma Pick disease atypical teratoid rhabdoid tumor dermatomyositis HIV Coinfection lung adenocarcinoma malignant glioma ovarian cancer HIV infectious disease subependymal giant cell astrocytoma astrocytic tumor dental caries Hashimoto thyroiditis large cell medulloblastoma lymphoplasmacytic lymphoma osteosarcoma Pick disease atypical teratoid rhabdoid tumor dermatomyositis HIV Coinfection lung adenocarcinoma malignant glioma ovarian cancer psoriasis glioblastoma lung cancer medulloblastoma pancreatic ductal adenocarcinoma
B	Pharos: O95863	Neoplasm Invasiveness amyotrophic lateral sclerosis type 1 breast carcinoma cholestasis psoriasis breast cancer cancer gastric neoplasm liver disease ovarian disease stomach disease thyroid gland papillary carcinoma familial nonmedullary thyroid carcinoma hereditary diffuse gastric adenocarcinoma lung disease Neoplasm Invasiveness amyotrophic lateral sclerosis type 1 breast carcinoma cholestasis psoriasis breast cancer cancer gastric neoplasm liver disease ovarian disease stomach disease thyroid gland papillary carcinoma familial nonmedullary thyroid carcinoma hereditary diffuse gastric adenocarcinoma lung disease prostate disease systemic lupus erythematosus ureteral obstruction breast disease gastric cancer intestinal disease

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.