2ODG | pdb_00002odg

Complex of barrier-to-autointegration factor and LEM-domain of emerin

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	d2odga_	All alpha proteins	SAM domain-like	Barrier-to-autointegration factor, BAF	Barrier-to-autointegration factor, BAF	Barrier-to-autointegration factor, BAF	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d2odgb_	All alpha proteins	SAM domain-like	Barrier-to-autointegration factor, BAF	Barrier-to-autointegration factor, BAF	Barrier-to-autointegration factor, BAF	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d2odgc2	All alpha proteins	LEM/SAP HeH motif	LEM domain	LEM domain	Inner nuclear membrane protein emerin	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d2odgc3	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	Barrier-to-autointegration factor, BAF	8037724	3000540	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Barrier-to-autointegration factor, BAF	8037724	3000540	SCOP2B (2022-06-29)
C	SCOP2 Family	LEM domain	8031023	4002921	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	LEM domain	8043401	3001900	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	BAF	e2odgA1	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: BAF	ECOD (1.6)
B	BAF	e2odgB1	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: BAF	ECOD (1.6)
C	LEM	e2odgC1	A: alpha arrays	X: LEM/SAP HeH motif-like	H: LEM/SAP HeH motif	T: LEM/SAP HeH motif	F: LEM	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.150.40	Mainly Alpha	Orthogonal Bundle	DNA polymerase	domain 1	CATH (4.3.0)
B	1.10.150.40	Mainly Alpha	Orthogonal Bundle	DNA polymerase	domain 1	CATH (4.3.0)
C	1.10.720.40	Mainly Alpha	Orthogonal Bundle	Transcription Termination Factor Rho, Rna-binding Domain	Chain A, Domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF02961	Barrier to autointegration factor (SAM_BAF)	Barrier to autointegration factor	The BAF protein has a SAM-domain-like bundle of orthogonally packed alpha-hairpins - one classic and one pseudo helix-hairpin-helix motif. The protein is involved in the prevention of retroviral DNA integration.	Domain
C	PF03020	LEM domain (LEM)	LEM domain	The LEM domain is 50 residues long and is composed of two parallel alpha helices. This domain is found in inner nuclear membrane proteins. It is called the LEM domain after LAP2 Swiss:Q62733, Emerin Swiss:P50402 and Man1.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Barrier-to-autointegration factor	DNA binding binding nucleic acid binding double-stranded DNA binding identical protein binding protein binding protein homodimerization activity protein dimerization activity	regulation of molecular function regulation of catalytic activity negative regulation of transferase activity biological regulation negative regulation of molecular function negative regulation of catalytic activity regulation of transferase activity negative regulation of protein ADP-ribosylation regulation of protein ADP-ribosylation multicellular organismal process regulation of cellular process negative regulation of biological process negative regulation of type I interferon production cytokine production regulation of molecular function regulation of catalytic activity negative regulation of transferase activity biological regulation negative regulation of molecular function negative regulation of catalytic activity regulation of transferase activity negative regulation of protein ADP-ribosylation regulation of protein ADP-ribosylation multicellular organismal process regulation of cellular process negative regulation of biological process negative regulation of type I interferon production cytokine production negative regulation of cellular process regulation of cytokine production regulation of multicellular organismal process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process type I interferon production negative regulation of metabolic process negative regulation of cytokine production regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process negative regulation of multicellular organismal process regulation of metabolic process regulation of type I interferon production cellular component organization organelle organization chromosome organization cellular component organization or biogenesis regulation of defense response regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms negative regulation of response to biotic stimulus response to stimulus regulation of response to external stimulus response to biotic stimulus response to stress regulation of response to stress innate immune response regulation of immune system process response to external biotic stimulus negative regulation of response to stimulus immune response response to other organism defense response regulation of innate immune response negative regulation of immune response defense response to symbiont response to external stimulus regulation of response to stimulus negative regulation of immune system process immune system process defense response to other organism negative regulation of response to external stimulus negative regulation of defense response regulation of immune response negative regulation of innate immune response mitotic nuclear membrane reassembly membrane biogenesis mitotic cell cycle nuclear membrane reassembly cellular component biogenesis cellular component assembly cell cycle endomembrane system organization cell cycle process membrane organization mitotic nuclear division organelle fission nuclear membrane organization membrane assembly nuclear division nucleus organization mitotic cell cycle process mitotic nuclear membrane organization nuclear envelope organization negative regulation of viral genome replication viral life cycle negative regulation of viral process regulation of viral process regulation of viral life cycle viral genome replication viral process regulation of viral genome replication response to virus response to oxidative stress nucleobase-containing compound metabolic process primary metabolic process DNA metabolic process DNA integration nucleic acid metabolic process cellular response to stimulus positive regulation of response to biotic stimulus pattern recognition receptor signaling pathway regulation of signal transduction intracellular signal transduction cGAS/STING signaling pathway cell communication immune response-activating signaling pathway positive regulation of immune response signal transduction positive regulation of immune system process innate immune response-activating signaling pathway negative regulation of cGAS/STING signaling pathway regulation of pattern recognition receptor signaling pathway positive regulation of defense response activation of innate immune response activation of immune response cytoplasmic pattern recognition receptor signaling pathway intracellular receptor signaling pathway signaling negative regulation of signaling negative regulation of cytoplasmic pattern recognition receptor signaling pathway negative regulation of intracellular signal transduction positive regulation of biological process regulation of cytoplasmic pattern recognition receptor signaling pathway negative regulation of cell communication positive regulation of response to stimulus positive regulation of response to external stimulus immune response-regulating signaling pathway regulation of intracellular signal transduction regulation of signaling positive regulation of innate immune response negative regulation of signal transduction regulation of cell communication chromatin organization	intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromosome condensed chromosome membrane-bounded organelle organelle envelope nuclear envelope nucleus intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromosome condensed chromosome membrane-bounded organelle organelle envelope nuclear envelope nucleus intracellular membrane-bounded organelle endomembrane system cytoplasm cytosol membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen chromatin
C	Emerin	cytoskeletal protein binding actin binding protein binding binding cell adhesion molecule binding cadherin binding beta-tubulin binding tubulin binding	cellular response to stimulus regulation of biological process regulation of signaling regulation of cellular process cell surface receptor signaling pathway response to stimulus regulation of Wnt signaling pathway signaling regulation of canonical Wnt signaling pathway canonical Wnt signaling pathway biological regulation regulation of signal transduction cell communication regulation of response to stimulus cellular response to stimulus regulation of biological process regulation of signaling regulation of cellular process cell surface receptor signaling pathway response to stimulus regulation of Wnt signaling pathway signaling regulation of canonical Wnt signaling pathway canonical Wnt signaling pathway biological regulation regulation of signal transduction cell communication regulation of response to stimulus regulation of cell communication cellular process signal transduction Wnt signaling pathway membrane organization cellular component organization nucleus organization organelle organization nuclear envelope organization cellular component organization or biogenesis endomembrane system organization nuclear membrane organization metabolic process primary metabolic process protein metabolic process macromolecule metabolic process supramolecular fiber organization amyloid fibril formation negative regulation of signaling negative regulation of biological process negative regulation of cell communication negative regulation of Wnt signaling pathway negative regulation of cellular process negative regulation of response to stimulus negative regulation of signal transduction negative regulation of canonical Wnt signaling pathway developmental process muscle structure development animal organ development anatomical structure development muscle organ development skeletal muscle cell differentiation cellular developmental process skeletal muscle tissue development tissue development striated muscle tissue development skeletal muscle organ development cell differentiation muscle tissue development protein localization regulation of localization establishment of protein localization cellular localization nitrogen compound transport 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 cellular macromolecule localization establishment of localization in cell positive regulation of intracellular transport nuclear export regulation of protein export from nucleus positive regulation of cellular process regulation of intracellular transport regulation of transport 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 response to endogenous stimulus cellular response to growth factor stimulus response to endogenous stimulus response to growth factor negative regulation of cell population proliferation fibroblast proliferation cell population proliferation regulation of fibroblast proliferation regulation of cell population proliferation negative regulation of fibroblast proliferation multicellular organismal process system process muscle contraction muscle system process	cellular anatomical structure membrane membrane-bounded organelle intracellular organelle organelle envelope intracellular anatomical structure organelle nuclear envelope nucleus intracellular membrane-bounded organelle endomembrane system nuclear membrane organelle membrane cytoplasm cellular anatomical structure membrane membrane-bounded organelle intracellular organelle organelle envelope intracellular anatomical structure organelle nuclear envelope nucleus intracellular membrane-bounded organelle endomembrane system nuclear membrane organelle membrane cytoplasm cytosol TMEM240-body membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen nuclear outer membrane organelle outer membrane bounding membrane of organelle nuclear outer membrane-endoplasmic reticulum membrane network outer membrane organelle inner membrane nuclear inner membrane cytoskeleton spindle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton polymeric cytoskeletal fiber supramolecular fiber microtubule supramolecular polymer supramolecular complex endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR051387	Barrier-to-autointegration factor	Family
A, B	IPR004122	Barrier- to-autointegration factor, BAF	Family
A, B	IPR036617	Barrier-to-autointegration factor, BAF superfamily	Homologous Superfamily
C	IPR003887	LEM domain	Domain
C	IPR035004	Emerin	Family
C	IPR011015	LEM/LEM-like domain superfamily	Homologous Superfamily
C	IPR034989	Emerin, LEM domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: O75531	Nestor-Guillermo progeria syndrome bipolar I disorder
C	Pharos: P50402	Emery-Dreifuss muscular dystrophy X-linked Emery-Dreifuss muscular dystrophy myopathy cardiomyopathy arthrogryposis Charcot-Marie-Tooth disease diabetes mellitus Emery-Dreifuss muscular dystrophy 2, autosomal dominant muscle tissue disease Muscular dystrophy, tardive Emery-Dreifuss type, with contractures autosomal recessive Emery-Dreifuss muscular dystrophy dilated cardiomyopathy Hutchinson-Gilford progeria syndrome muscular disease congenital muscular dystrophy Emery-Dreifuss muscular dystrophy X-linked Emery-Dreifuss muscular dystrophy myopathy cardiomyopathy arthrogryposis Charcot-Marie-Tooth disease diabetes mellitus Emery-Dreifuss muscular dystrophy 2, autosomal dominant muscle tissue disease Muscular dystrophy, tardive Emery-Dreifuss type, with contractures autosomal recessive Emery-Dreifuss muscular dystrophy dilated cardiomyopathy Hutchinson-Gilford progeria syndrome muscular disease congenital muscular dystrophy limb-girdle muscular dystrophy muscular dystrophy testicular germ cell tumor

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.