4ZVZ | pdb_00004zvz

Co-crystal structures of PP5 in complex with 5-methyl-7-oxabicyclo[2.2.1]heptane-2,3-dicarboxylic acid

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)
D	d4zvzd_	Alpha and beta proteins (a+b)	Metallo-dependent phosphatases	Metallo-dependent phosphatases	Protein serine/threonine phosphatase	Serine/threonine protein phosphatase 5, PP5	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d4zvzc_	Alpha and beta proteins (a+b)	Metallo-dependent phosphatases	Metallo-dependent phosphatases	Protein serine/threonine phosphatase	Serine/threonine protein phosphatase 5, PP5	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d4zvzb_	Alpha and beta proteins (a+b)	Metallo-dependent phosphatases	Metallo-dependent phosphatases	Protein serine/threonine phosphatase	Serine/threonine protein phosphatase 5, PP5	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d4zvza_	Alpha and beta proteins (a+b)	Metallo-dependent phosphatases	Metallo-dependent phosphatases	Protein serine/threonine phosphatase	Serine/threonine protein phosphatase 5, PP5	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)
D	SCOP2B Superfamily	Metallo-dependent phosphatases	8039301	3001067	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Metallo-dependent phosphatases	8039301	3001067	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Metallo-dependent phosphatases	8039301	3001067	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Metallo-dependent phosphatases	8039301	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)
D	Glyco_transf_41	e4zvzD1	A: alpha bundles	X: Ribosomal protein L31e-like	H: Class 1 N-terminal docking domain	T: Class 1 N-terminal docking domain	F: Glyco_transf_41	ECOD (develop294)
C	Glyco_transf_41	e4zvzC1	A: alpha bundles	X: Ribosomal protein L31e-like	H: Class 1 N-terminal docking domain	T: Class 1 N-terminal docking domain	F: Glyco_transf_41	ECOD (develop294)
B	Glyco_transf_41	e4zvzB1	A: alpha bundles	X: Ribosomal protein L31e-like	H: Class 1 N-terminal docking domain	T: Class 1 N-terminal docking domain	F: Glyco_transf_41	ECOD (develop294)
A	Glyco_transf_41	e4zvzA1	A: alpha bundles	X: Ribosomal protein L31e-like	H: Class 1 N-terminal docking domain	T: Class 1 N-terminal docking domain	F: Glyco_transf_41	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.60.21.10	Alpha Beta	4-Layer Sandwich	Purple Acid Phosphatase	chain A, domain 2	CATH (4.3.0)
C	3.60.21.10	Alpha Beta	4-Layer Sandwich	Purple Acid Phosphatase	chain A, domain 2	CATH (4.3.0)
B	3.60.21.10	Alpha Beta	4-Layer Sandwich	Purple Acid Phosphatase	chain A, domain 2	CATH (4.3.0)
A	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, B, C, D	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, B, C, D	Serine/threonine-protein phosphatase 5	Hsp90 protein binding protein binding binding heat shock protein 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 Hsp70 protein binding protein-folding chaperone binding Hsp90 protein binding protein binding binding heat shock protein 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 Hsp70 protein binding protein-folding chaperone binding RNA binding nucleic acid binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding ADP binding cytoskeletal protein binding microtubule binding tubulin binding tau protein binding lipid binding protein-containing complex binding G-protein alpha-subunit binding enzyme regulator activity protein kinase inhibitor activity molecular function inhibitor activity molecular function regulator activity enzyme inhibitor activity protein kinase regulator activity protein serine/threonine kinase inhibitor activity kinase inhibitor activity kinase regulator activity kinase binding mitogen-activated protein kinase kinase kinase binding enzyme binding protein kinase binding cation binding metal ion binding identical protein binding	cellular process cell cycle mitotic cell cycle cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction positive regulation of canonical NF-kappaB signal transduction response to stimulus signaling positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication cellular process cell cycle mitotic cell cycle cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction positive regulation of canonical NF-kappaB signal transduction response to stimulus signaling positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette signal transduction positive regulation of cellular process regulation of biological process regulation of signaling biological regulation positive regulation of intracellular signal transduction canonical NF-kappaB signal transduction regulation of response to stimulus regulation of cell communication regulation of canonical NF-kappaB signal transduction positive regulation of signaling negative regulation of programmed cell death regulation of apoptotic process negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process apoptotic process programmed cell death RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process macromolecule metabolic process response to lipid response to fatty acid response to chemical response to oxygen-containing compound response to arachidonate MAPK cascade cellular response to oxidative stress cellular response to chemical stress cellular response to oxygen-containing compound cellular response to hydrogen peroxide response to reactive oxygen species response to hydrogen peroxide response to oxidative stress cellular response to reactive oxygen species cellular response to chemical stimulus cellular response to stress response to stress negative regulation of signaling negative regulation of intracellular signal transduction negative regulation of cell communication negative regulation of response to stimulus regulation of MAPK cascade negative regulation of signal transduction negative regulation of MAPK cascade response to metal ion response to lead ion intracellular receptor signaling pathway hormone-mediated signaling pathway cellular response to endogenous stimulus response to hormone response to steroid hormone regulation of intracellular steroid hormone receptor signaling pathway nuclear receptor-mediated steroid hormone signaling pathway cellular response to steroid hormone stimulus steroid hormone receptor signaling pathway cellular response to hormone stimulus response to endogenous stimulus positive regulation of nuclear receptor-mediated glucocorticoid signaling pathway nuclear receptor-mediated corticosteroid signaling pathway positive regulation of intracellular steroid hormone receptor signaling pathway cellular response to lipid nuclear receptor-mediated signaling pathway regulation of nuclear receptor-mediated glucocorticoid signaling pathway nuclear receptor-mediated glucocorticoid signaling pathway response to morphine response to isoquinoline alkaloid response to nitrogen compound response to alkaloid protein dephosphorylation dephosphorylation peptidyl-serine dephosphorylation macromolecule modification phosphate-containing compound metabolic process protein metabolic process protein modification process phosphorus metabolic process double-strand break repair DNA metabolic process DNA damage response DNA repair cellular response to metal ion cellular response to cadmium ion response to cadmium ion	somatodendritic compartment cell body cellular anatomical structure perikaryon neuronal cell body cell projection proximal dendrite dendrite dendritic tree neuron projection plasma membrane bounded cell projection intracellular anatomical structure cytoplasm cytosol somatodendritic compartment cell body cellular anatomical structure perikaryon neuronal cell body cell projection proximal dendrite dendrite dendritic tree neuron projection plasma membrane bounded cell projection intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen protein-containing complex protein folding chaperone complex intracellular protein-containing complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR051134	Protein Phosphatase PPP	Family
A, B, C, D	IPR011990	Tetratricopeptide-like helical domain superfamily	Homologous Superfamily
A, B, C, D	IPR004843	Calcineurin-like, phosphoesterase domain	Domain
A, B, C, D	IPR041753	PP5, C-terminal metallophosphatase domain	Domain
A, B, C, D	IPR019734	Tetratricopeptide repeat	Repeat
A, B, C, D	IPR013235	PPP domain	Domain
A, B, C, D	IPR029052	Metallo-dependent phosphatase-like	Homologous Superfamily
A, B, C, D	IPR006186	Serine/threonine-specific protein phosphatase/bis(5-nucleosyl)-tetraphosphatase	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D	Pharos: P53041	Crohn disease Alzheimer disease amyloidosis acquired metabolic disease malignant mesothelioma subependymal giant cell astrocytoma inflammatory bowel disease neurodegenerative disease lung cancer osteosarcoma

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.