3P71

Crystal structure of the complex of LCMT-1 and PP2A

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 [auth T]	d3p71t_	Alpha and beta proteins (a/b)	S-adenosyl-L-methionine-dependent methyltransferases	S-adenosyl-L-methionine-dependent methyltransferases	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B [auth C]	d3p71c_	Alpha and beta proteins (a+b)	Metallo-dependent phosphatases	Metallo-dependent phosphatases	Protein serine/threonine phosphatase	Protein phosphatase 2A catalytic subunit alpha isoform, PP2A-alpha	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 [auth T]	SCOP2B Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8084322	3000118	SCOP2B (2022-06-29)
B [auth C]	SCOP2B Superfamily	Metallo-dependent phosphatases	8039778	3001067	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 [auth T]	LCM	e3p71T1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: LCM	ECOD (1.6)
B [auth C]	Metallophos_2_1	e3p71C1	A: a+b four layers	X: Carbon-nitrogen hydrolase-like	H: Metallo-dependent phosphatases (From Topology)	T: Metallo-dependent phosphatases	F: Metallophos_2_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth T]	3.40.50.150	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Vaccinia Virus protein VP39	CATH (4.3.0)
B [auth C]	3.60.21.10	Alpha Beta	4-Layer Sandwich	Purple Acid Phosphatase	chain A, domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth T]	PF04072	Leucine carboxyl methyltransferase (LCM)	Leucine carboxyl methyltransferase	-	Family
B [auth C]	PF00149	Calcineurin-like phosphoesterase (Metallophos)	Calcineurin-like phosphoesterase	This family includes a diverse range of phosphoesterases [1], including protein phosphoserine phosphatases, nucleotidases, sphingomyelin phosphodiesterases and 2'-3' cAMP phosphodiesterases as well as nucleases such as bacterial SbcD Swiss:P13457 or ...	This family includes a diverse range of phosphoesterases [1], including protein phosphoserine phosphatases, nucleotidases, sphingomyelin phosphodiesterases and 2'-3' cAMP phosphodiesterases as well as nucleases such as bacterial SbcD Swiss:P13457 or yeast MRE11 Swiss:P32829. The most conserved regions in this superfamily centre around the metal chelating residues.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth T]	Leucine carboxyl methyltransferase 1	O-methyltransferase activity catalytic activity, acting on a protein transferase activity, transferring one-carbon groups transferase activity S-adenosylmethionine-dependent methyltransferase activity protein C-terminal carboxyl O-methyltransferase activity carboxyl-O-methyltransferase activity protein carboxyl O-methyltransferase activity protein C-terminal leucine carboxyl O-methyltransferase activity protein methyltransferase activity methyltransferase activity catalytic activity	macromolecule modification metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process protein modification process protein methylation macromolecule methylation protein alkylation methylation cellular response to stimulus regulation of cellular process regulation of cell cycle phase transition macromolecule modification metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process protein modification process protein methylation macromolecule methylation protein alkylation methylation cellular response to stimulus regulation of cellular process regulation of cell cycle phase transition response to stimulus negative regulation of biological process spindle checkpoint signaling negative regulation of cell cycle regulation of signal transduction regulation of mitotic nuclear division intracellular signal transduction negative regulation of mitotic cell cycle cell communication regulation of cell cycle checkpoint negative regulation of mitotic sister chromatid segregation negative regulation of chromosome organization negative regulation of cell cycle phase transition mitotic spindle checkpoint signaling signal transduction cell cycle mitotic sister chromatid separation chromosome segregation negative regulation of sister chromatid segregation mitotic spindle assembly checkpoint signaling regulation of biological process negative regulation of cellular component organization regulation of cell cycle process regulation of spindle checkpoint sister chromatid segregation regulation of chromosome organization regulation of organelle organization regulation of mitotic cell cycle phase transition regulation of mitotic sister chromatid segregation mitotic cell cycle process regulation of response to stimulus regulation of chromosome separation negative regulation of mitotic nuclear division regulation of chromosome segregation regulation of cellular component organization regulation of mitotic sister chromatid separation regulation of metaphase/anaphase transition of cell cycle regulation of mitotic spindle checkpoint signaling regulation of mitotic cell cycle spindle assembly checkpoint spindle assembly checkpoint signaling cell cycle phase transition regulation of mitotic metaphase/anaphase transition mitotic cell cycle cellular component organization regulation of mitotic cell cycle regulation of intracellular signal transduction negative regulation of cellular process mitotic sister chromatid segregation negative regulation of mitotic metaphase/anaphase transition cellular component organization or biogenesis regulation of cell cycle negative regulation of chromosome separation cell cycle process mitotic nuclear division regulation of signaling negative regulation of mitotic cell cycle phase transition organelle fission biological regulation chromosome organization negative regulation of cell cycle process cell cycle checkpoint signaling mitotic cell cycle checkpoint signaling organelle organization nuclear division negative regulation of chromosome segregation chromosome separation negative regulation of organelle organization negative regulation of nuclear division regulation of sister chromatid segregation negative regulation of mitotic sister chromatid separation regulation of nuclear division negative regulation of metaphase/anaphase transition of cell cycle nuclear chromosome segregation metaphase/anaphase transition of mitotic cell cycle regulation of cell communication metaphase/anaphase transition of cell cycle mitotic cell cycle phase transition C-terminal protein amino acid modification C-terminal protein methylation post-translational protein modification regulation of apoptotic process apoptotic process regulation of programmed cell death cell death programmed cell death protein-containing complex organization regulation of cellular component biogenesis negative regulation of protein-containing complex assembly cellular component biogenesis regulation of protein-containing complex assembly cellular component assembly protein-containing complex assembly cell cycle G2/M phase transition G2/M transition of mitotic cell cycle monosaccharide metabolic process carbohydrate metabolic process hexose metabolic process regulation of primary metabolic process regulation of small molecule metabolic process small molecule metabolic process regulation of carbohydrate metabolic process regulation of glucose metabolic process regulation of metabolic process glucose metabolic process	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
B [auth C]	Serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform	phosphoric ester hydrolase activity phosphoprotein phosphatase activity protein serine/threonine phosphatase activity catalytic activity, acting on a protein hydrolase activity, acting on ester bonds phosphatase activity hydrolase activity catalytic activity protein heterodimerization activity protein binding binding protein dimerization activity signaling receptor binding GABA receptor binding phosphoric ester hydrolase activity phosphoprotein phosphatase activity protein serine/threonine phosphatase activity catalytic activity, acting on a protein hydrolase activity, acting on ester bonds phosphatase activity hydrolase activity catalytic activity protein heterodimerization activity protein binding binding protein dimerization activity signaling receptor binding GABA receptor binding protein tyrosine phosphatase activity myosin phosphatase activity cytoskeletal protein binding tau protein binding cation binding ion binding metal ion binding small molecule binding	cellular process cell cycle mitotic cell cycle developmental process anatomical structure development tissue development mesoderm development protein dephosphorylation dephosphorylation primary metabolic process macromolecule modification phosphate-containing compound metabolic process metabolic process protein metabolic process cellular process cell cycle mitotic cell cycle developmental process anatomical structure development tissue development mesoderm development protein dephosphorylation dephosphorylation primary metabolic process macromolecule modification phosphate-containing compound metabolic process metabolic process protein metabolic process macromolecule metabolic process protein modification process phosphorus metabolic process regulation of growth regulation of biological process biological regulation growth regulation of protein binding regulation of molecular function regulation of binding regulation of microtubule binding multicellular organismal process multicellular organismal-level homeostasis leukocyte homeostasis T cell homeostasis homeostatic process immune system process homeostasis of number of cells lymphocyte homeostasis cellular response to stimulus positive regulation of cell communication positive regulation of response to biotic stimulus regulation of cellular process positive regulation of signal transduction pattern recognition receptor signaling pathway response to stimulus regulation of NLRP3 inflammasome complex assembly positive regulation of NLRP3 inflammasome complex assembly regulation of signal transduction response to biotic stimulus intracellular signal transduction cell communication cellular component biogenesis immune response-activating signaling pathway cellular component assembly inflammasome-mediated signaling pathway positive regulation of immune response canonical inflammasome complex assembly regulation of immune system process signal transduction positive regulation of immune system process innate immune response-activating signaling pathway positive regulation of pattern recognition receptor signaling pathway immune response response to other organism regulation of innate immune response response to external stimulus positive regulation of intracellular signal transduction positive regulation of inflammasome-mediated signaling pathway regulation of inflammasome-mediated signaling pathway regulation of response to stimulus defense response to other organism regulation of pattern recognition receptor signaling pathway NLRP3 inflammasome complex assembly positive regulation of defense response activation of innate immune response regulation of immune response inflammatory response activation of immune response cytoplasmic pattern recognition receptor signaling pathway regulation of defense response regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of cellular component organization positive regulation of cellular component organization regulation of response to external stimulus intracellular receptor signaling pathway signaling positive regulation of biological process regulation of cytoplasmic pattern recognition receptor signaling pathway positive regulation of response to stimulus cellular component organization regulation of protein-containing complex assembly positive regulation of protein-containing complex assembly positive regulation of response to external stimulus immune response-regulating signaling pathway regulation of intracellular signal transduction regulation of response to stress response to stress innate immune response protein-containing complex assembly response to external biotic stimulus cellular component organization or biogenesis positive regulation of cellular process regulation of signaling positive regulation of innate immune response defense response protein-containing complex organization positive regulation of cellular component biogenesis defense response to symbiont regulation of cellular component biogenesis regulation of cell communication positive regulation of signaling hippo signaling negative regulation of signaling negative regulation of intracellular signal transduction negative regulation of biological process negative regulation of cell communication negative regulation of cellular process negative regulation of response to stimulus negative regulation of hippo signaling negative regulation of signal transduction regulation of hippo signaling response to metal ion response to chemical response to lead ion regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction negative regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction intracellular signaling cassette phosphatidylinositol 3-kinase/protein kinase B signal transduction regulation of epithelial to mesenchymal transition regulation of developmental process cellular developmental process regulation of cell differentiation mesenchyme development cell differentiation negative regulation of cell differentiation regulation of multicellular organismal process negative regulation of developmental process animal organ development negative regulation of epithelial to mesenchymal transition epithelial to mesenchymal transition mesenchymal cell differentiation negative regulation of multicellular organismal process ribonucleotide catabolic process pyridine nucleotide catabolic process negative regulation of small molecule metabolic process negative regulation of glycolytic process oxoacid metabolic process carbohydrate catabolic process organophosphate catabolic process carbohydrate derivative metabolic process regulation of generation of precursor metabolites and energy nucleoside phosphate catabolic process organic acid metabolic process negative regulation of ATP metabolic process regulation of primary metabolic process regulation of ATP metabolic process nucleobase-containing compound metabolic process regulation of purine nucleotide catabolic process negative regulation of nucleotide metabolic process regulation of small molecule metabolic process glycolytic process regulation of nucleotide metabolic process regulation of phosphate metabolic process pyridine-containing compound metabolic process small molecule metabolic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process purine ribonucleotide catabolic process pyridine nucleotide metabolic process negative regulation of carbohydrate metabolic process nucleoside phosphate metabolic process nicotinamide nucleotide metabolic process pyruvate metabolic process regulation of carbohydrate catabolic process negative regulation of metabolic process negative regulation of purine nucleotide catabolic process purine nucleoside diphosphate metabolic process purine-containing compound catabolic process nucleotide metabolic process regulation of purine nucleotide metabolic process nucleobase-containing compound catabolic process nucleoside diphosphate metabolic process purine nucleoside diphosphate catabolic process nucleoside diphosphate catabolic process regulation of nucleotide catabolic process regulation of phosphorus metabolic process nucleoside triphosphate metabolic process monocarboxylic acid metabolic process purine ribonucleotide metabolic process regulation of metabolic process pyridine-containing compound catabolic process ribose phosphate metabolic process catabolic process ATP metabolic process negative regulation of purine nucleotide metabolic process negative regulation of phosphate metabolic process 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 regulation of carbohydrate metabolic process nucleotide catabolic process ribonucleoside triphosphate metabolic process negative regulation of nucleotide catabolic process negative regulation of catabolic process purine nucleoside triphosphate metabolic process purine nucleotide catabolic process carbohydrate metabolic process carbohydrate derivative catabolic process regulation of glycolytic process through fructose-6-phosphate ADP catabolic process carboxylic acid metabolic process regulation of catabolic process generation of precursor metabolites and energy regulation of glycolytic process purine-containing compound metabolic process ADP metabolic process organophosphate metabolic process negative regulation of phosphorus metabolic process purine ribonucleoside diphosphate metabolic process purine ribonucleoside diphosphate catabolic process negative regulation of glycolytic process through fructose-6-phosphate glycolytic process through fructose-6-phosphate regulation of protein modification process regulation of protein phosphorylation protein phosphorylation phosphorylation regulation of protein metabolic process regulation of macromolecule metabolic process regulation of phosphorylation peptidyl-serine dephosphorylation positive regulation of phosphorylation regulation of catalytic activity positive regulation of protein metabolic process regulation of transferase activity positive regulation of phosphate metabolic process positive regulation of protein serine/threonine kinase activity positive regulation of metabolic process positive regulation of molecular function positive regulation of protein modification process positive regulation of macromolecule metabolic process positive regulation of protein kinase activity positive regulation of protein phosphorylation positive regulation of transferase activity positive regulation of phosphorus metabolic process positive regulation of catalytic activity regulation of protein kinase activity positive regulation of kinase activity regulation of kinase activity regulation of protein serine/threonine kinase activity positive regulation of protein binding positive regulation of microtubule binding positive regulation of binding regulation of cell cycle phase transition regulation of cell cycle process cell cycle phase transition regulation of cell cycle G1/S phase transition cell cycle G1/S phase transition regulation of mitotic cell cycle phase transition regulation of mitotic cell cycle regulation of G1/S transition of mitotic cell cycle mitotic cell cycle process regulation of cell cycle G1/S transition of mitotic cell cycle cell cycle process mitotic cell cycle phase transition sexual reproduction reproductive process meiotic cell cycle peptidyl-threonine dephosphorylation	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle phosphatase complex protein-containing complex catalytic complex protein phosphatase type 2A complex protein serine/threonine phosphatase complex cytoskeleton membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle phosphatase complex protein-containing complex catalytic complex protein phosphatase type 2A complex protein serine/threonine phosphatase complex cytoskeleton spindle membraneless organelle intracellular membraneless organelle spindle pole microtubule cytoskeleton membrane extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space vesicle extracellular membrane-bounded organelle cytosol cell periphery plasma membrane chromosome, centromeric region chromosome chromosomal region membrane microdomain membrane raft synapse cell junction FAR/SIN/STRIPAK complex nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth T]	IPR007213	Methyltransferase Ppm1/Ppm2/Tcmp	Family
A [auth T]	IPR016651	Leucine carboxyl methyltransferase 1	Family
A [auth T]	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Homologous Superfamily
B [auth C]	IPR047129	Serine/Threonine protein phosphatase PP2A-like	Family
B [auth C]	IPR004843	Calcineurin-like phosphoesterase domain, ApaH type	Domain
B [auth C]	IPR029052	Metallo-dependent phosphatase-like	Homologous Superfamily
B [auth C]	IPR006186	Serine/threonine-specific protein phosphatase/bis(5-nucleosyl)-tetraphosphatase	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A [auth T]	Pharos: Q9UIC8	Embryo Loss astrocytic tumor lymphoplasmacytic lymphoma ovarian cancer malignant glioma plasma cell myeloma dermatomyositis glioblastoma osteosarcoma
B [auth C]	Pharos: P67775	asthma heart disease systemic lupus erythematosus adenoma astrocytic tumor coronary artery disease hereditary spastic paraplegia lymphoplasmacytic lymphoma osteosarcoma psoriasis tuberculosis allergic rhinitis atypical teratoid rhabdoid tumor glioblastoma large cell medulloblastoma asthma heart disease systemic lupus erythematosus adenoma astrocytic tumor coronary artery disease hereditary spastic paraplegia lymphoplasmacytic lymphoma osteosarcoma psoriasis tuberculosis allergic rhinitis atypical teratoid rhabdoid tumor glioblastoma large cell medulloblastoma malignant glioma ovarian cancer subependymal giant cell astrocytoma breast cancer lung adenocarcinoma myocardial ischemia plasma cell myeloma

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.