4Y94 | pdb_00004y94

Crystal structure of the PH-TH module of Bruton's tyrosine kinase bound to inositol hexakisphosphate

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

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
D	d4y94d1	All beta proteins	PH domain-like barrel	PH domain-like	Pleckstrin-homology domain (PH domain)	automated matches	Bovine (Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
D	d4y94d2	Artifacts	Tags	Tags	Tags	N-terminal Tags	Bovine (Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
C [auth A]	d4y94a_	All beta proteins	PH domain-like barrel	PH domain-like	Pleckstrin-homology domain (PH domain)	automated matches	Bovine (Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
B [auth C]	d4y94c_	All beta proteins	PH domain-like barrel	PH domain-like	Pleckstrin-homology domain (PH domain)	automated matches	Bovine (Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
A [auth B]	d4y94b1	All beta proteins	PH domain-like barrel	PH domain-like	Pleckstrin-homology domain (PH domain)	automated matches	Bovine (Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
A [auth B]	d4y94b2	Artifacts	Tags	Tags	Tags	N-terminal Tags	Bovine (Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	PH domain-like	8084457	3000134	SCOP2B (2022-06-29)
C [auth A]	SCOP2B Superfamily	PH domain-like	8084457	3000134	SCOP2B (2022-06-29)
B [auth C]	SCOP2B Superfamily	PH domain-like	8084457	3000134	SCOP2B (2022-06-29)
A [auth B]	SCOP2 Family	Pleckstrin-homology domain (PH domain)	8084456	4002395	SCOP2 (2022-06-29)
A [auth B]	SCOP2 Superfamily	PH domain-like	8084457	3000134	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)
D	Cupin_1	e4y94D1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: DHS-like NAD/FAD-binding domain	F: Cupin_1	ECOD (v294.1)
C [auth A]	Cupin_1	e4y94A1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: DHS-like NAD/FAD-binding domain	F: Cupin_1	ECOD (v294.1)
B [auth C]	Cupin_1	e4y94C1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: DHS-like NAD/FAD-binding domain	F: Cupin_1	ECOD (v294.1)
A [auth B]	Cupin_1	e4y94B1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: DHS-like NAD/FAD-binding domain	F: Cupin_1	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)
C [auth A]	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)
B [auth C]	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)
A [auth B]	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth B], B [auth C], C [auth A], D	PF00779	BTK motif (BTK)	BTK motif	-	Motif
A [auth B], B [auth C], C [auth A], D	PF00169	PH domain (PH)	PH domain	PH stands for pleckstrin homology.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth B], B [auth C], C [auth A], D	Non-specific protein-tyrosine kinase	phospholipase binding protein binding binding enzyme 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 phospholipase binding protein binding binding enzyme 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 non-membrane spanning protein tyrosine kinase activity protein tyrosine kinase activity catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups phosphatidylinositol-3,4,5-trisphosphate binding phospholipid binding lipid binding phosphatidylinositol phosphate binding enzyme regulator activity enzyme activator activity molecular function activator activity phospholipase activator activity molecular function regulator activity lipase activator activity cation binding transition metal ion binding zinc ion binding metal ion binding identical protein binding	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 signal transduction response to biotic stimulus intracellular signal transduction cGAS/STING signaling pathway cell communication immune response-activating signaling pathway positive regulation of immune response 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 signal transduction response to biotic stimulus intracellular signal transduction cGAS/STING signaling pathway cell communication immune response-activating signaling pathway positive regulation of immune response regulation of immune system process signal transduction positive regulation of immune system process innate immune response-activating signaling pathway regulation of biological process 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 cGAS/STING signaling pathway regulation of response to stimulus defense response to other organism regulation of pattern recognition receptor signaling pathway positive regulation of defense response activation of innate immune response regulation of immune 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 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 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 response to external biotic stimulus positive regulation of cellular process regulation of signaling positive regulation of innate immune response defense response biological regulation defense response to symbiont immune system process regulation of cell communication cellular process positive regulation of signaling negative regulation of lymphocyte proliferation multicellular organismal process regulation of leukocyte activation negative regulation of biological process regulation of cell activation lymphocyte activation negative regulation of lymphocyte activation leukocyte proliferation leukocyte activation negative regulation of mononuclear cell proliferation negative regulation of leukocyte proliferation regulation of B cell proliferation lymphocyte proliferation regulation of B cell activation negative regulation of cellular process regulation of multicellular organismal process negative regulation of B cell activation regulation of lymphocyte proliferation regulation of leukocyte proliferation negative regulation of cell population proliferation cell population proliferation B cell activation cell activation B cell proliferation negative regulation of B cell proliferation negative regulation of cell activation negative regulation of immune system process regulation of cell population proliferation mononuclear cell proliferation regulation of mononuclear cell proliferation negative regulation of multicellular organismal process negative regulation of leukocyte activation regulation of lymphocyte activation immune response-regulating cell surface receptor signaling pathway cell surface receptor signaling pathway immune response-activating cell surface receptor signaling pathway B cell receptor signaling pathway antigen receptor-mediated signaling pathway T cell receptor signaling pathway adaptive immune response adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains lymphocyte mediated immunity immunoglobulin production cellular developmental process immunoglobulin production involved in immunoglobulin-mediated immune response cell development mononuclear cell differentiation B cell affinity maturation lymphocyte differentiation B cell differentiation cell differentiation anatomical structure development leukocyte mediated immunity production of molecular mediator of immune response developmental process hemopoiesis gene expression immunoglobulin mediated immune response macromolecule biosynthetic process immune effector process biosynthetic process peripheral B cell selection B cell mediated immunity B cell selection metabolic process macromolecule metabolic process leukocyte differentiation anatomical structure maturation cell maturation developmental maturation cytokine production regulation of cytokine production negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of metabolic process negative regulation of cytokine production regulation of macromolecule metabolic process regulation of gene expression negative regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process regulation of metabolic process regulation of NLRP3 inflammasome complex assembly positive regulation of NLRP3 inflammasome complex assembly cellular component biogenesis cellular component assembly inflammasome-mediated signaling pathway canonical inflammasome complex assembly positive regulation of inflammasome-mediated signaling pathway regulation of inflammasome-mediated signaling pathway NLRP3 inflammasome complex assembly inflammatory response regulation of cellular component organization positive regulation of cellular component organization cellular component organization regulation of protein-containing complex assembly positive regulation of protein-containing complex assembly protein-containing complex assembly cellular component organization or biogenesis protein-containing complex organization positive regulation of cellular component biogenesis regulation of cellular component biogenesis 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 type I interferon production type I interferon production positive regulation of gene expression positive regulation of multicellular organismal process positive regulation of cytokine production regulation of type I interferon production response to peptide response to interleukin-7 response to chemical response to cytokine cellular response to cytokine stimulus cellular response to interleukin-7	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane membrane microdomain membrane raft membrane-bounded organelle intracellular organelle cytoplasmic vesicle organelle intracellular vesicle cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane membrane microdomain membrane raft membrane-bounded organelle intracellular organelle cytoplasmic vesicle organelle intracellular vesicle intracellular membrane-bounded organelle vesicle nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth B], B [auth C], C [auth A], D	IPR017441	Protein kinase, ATP binding site	Binding Site
A [auth B], B [auth C], C [auth A], D	IPR001849	Pleckstrin homology domain	Domain
A [auth B], B [auth C], C [auth A], D	IPR036860	SH2 domain superfamily	Homologous Superfamily
A [auth B], B [auth C], C [auth A], D	IPR008266	Tyrosine-protein kinase, active site	Active Site
A [auth B], B [auth C], C [auth A], D	IPR020635	Tyrosine-protein kinase, catalytic domain	Domain
A [auth B], B [auth C], C [auth A], D	IPR000980	SH2 domain	Domain
A [auth B], B [auth C], C [auth A], D	IPR035574	Tyrosine-protein kinase BTK, SH3 domain	Domain
A [auth B], B [auth C], C [auth A], D	IPR036028	SH3-like domain superfamily	Homologous Superfamily
A [auth B], B [auth C], C [auth A], D	IPR000719	Protein kinase domain	Domain
A [auth B], B [auth C], C [auth A], D	IPR011993	PH-like domain superfamily	Homologous Superfamily
A [auth B], B [auth C], C [auth A], D	IPR001245	Serine-threonine/tyrosine-protein kinase, catalytic domain	Domain
A [auth B], B [auth C], C [auth A], D	IPR001562	Zinc finger, Btk motif	Conserved Site
A [auth B], B [auth C], C [auth A], D	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
A [auth B], B [auth C], C [auth A], D	IPR001452	SH3 domain	Domain
A [auth B], B [auth C], C [auth A], D	IPR050198	Non-receptor tyrosine kinases involved in cell signaling	Family

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.