4OTD

Crystal Structure of PRK1 Catalytic Domain

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
Protein Modification Annotation

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d4otda_	Alpha and beta proteins (a+b)	Protein kinase-like (PK-like)	Protein kinase-like (PK-like)	automated matches	automated matches	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	SCOP2 Family	Protein kinases catalytic domain-like	8067256	4003661	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Protein kinase-like (PK-like)	8067257	3000066	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	Pkinase_Tyr	e4otdA1	A: a+b complex topology	X: Protein kinase/SAICAR synthase/ATP-grasp (From Homology)	H: Protein kinase/SAICAR synthase/ATP-grasp	T: Protein kinase	F: Pkinase_Tyr	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.200.20	Alpha Beta	2-Layer Sandwich	Phosphorylase Kinase	domain 1	CATH (4.3.0)
A	1.10.510.10	Mainly Alpha	Orthogonal Bundle	Transferase(Phosphotransferase)	domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00069	Protein kinase domain (Pkinase)	Protein kinase domain	-	Domain
A	PF00433	Protein kinase C terminal domain (Pkinase_C)	Protein kinase C terminal domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Serine/threonine-protein kinase N1	small GTPase binding protein binding binding enzyme binding GTPase binding histone binding histone deacetylase binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding small GTPase binding protein binding binding enzyme binding GTPase binding histone binding histone deacetylase binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding 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 transcription coactivator activity transcription regulator activity transcription coregulator activity nuclear receptor coactivator activity protein-macromolecule adaptor activity molecular adaptor activity protein serine/threonine kinase activity diacylglycerol-dependent serine/threonine kinase activity chromatin binding protein serine kinase activity transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding nuclear receptor binding DNA-binding transcription factor binding nuclear androgen receptor binding histone H3 kinase activity histone modifying activity histone H3T11 kinase activity histone kinase activity kinase binding protein kinase C binding protein kinase binding	negative regulation of lymphocyte proliferation multicellular organismal process regulation of cellular 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 lymphocyte proliferation multicellular organismal process regulation of cellular 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 regulation of immune system process negative regulation of B cell activation regulation of lymphocyte proliferation regulation of leukocyte proliferation regulation of biological process negative regulation of cell population proliferation cell population proliferation B cell activation biological regulation 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 immune system process regulation of mononuclear cell proliferation cellular process negative regulation of multicellular organismal process negative regulation of leukocyte activation regulation of lymphocyte activation renal system process system process regulation of protein modification process regulation of protein phosphorylation negative regulation of phosphate metabolic process regulation of primary metabolic process regulation of phosphate metabolic process phosphate-containing compound metabolic process negative regulation of protein modification process protein metabolic process protein modification process phosphorus metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process protein phosphorylation phosphorylation regulation of protein metabolic process negative regulation of metabolic process primary metabolic process regulation of macromolecule metabolic process negative regulation of protein phosphorylation macromolecule modification negative regulation of phosphorus metabolic process metabolic process regulation of phosphorylation regulation of phosphorus metabolic process macromolecule metabolic process negative regulation of phosphorylation regulation of metabolic process B cell homeostasis multicellular organismal-level homeostasis leukocyte homeostasis homeostatic process homeostasis of number of cells lymphocyte homeostasis response to osmotic stress hyperosmotic response response to stimulus response to stress response to abiotic stimulus post-translational protein modification developmental process immune system development multicellular organism development spleen development animal organ development anatomical structure development hematopoietic or lymphoid organ development system development epithelium migration tissue migration ameboidal-type cell migration epithelial cell migration cell migration cell motility lymphocyte apoptotic process leukocyte apoptotic process B cell apoptotic process apoptotic process cell death programmed cell death cellular response to stimulus signaling signal transduction cell communication adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains regulation of developmental process regulation of germinal center formation immune response regulation of adaptive immune response adaptive immune response anatomical structure morphogenesis regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains regulation of response to stimulus anatomical structure formation involved in morphogenesis germinal center formation regulation of immune response regulation of anatomical structure morphogenesis regulation of biosynthetic process production of molecular mediator of immune response regulation of immune effector process immunoglobulin production gene expression macromolecule biosynthetic process immune effector process regulation of gene expression regulation of immunoglobulin production biosynthetic process regulation of macromolecule biosynthetic process regulation of production of molecular mediator of immune response regulation of cell motility regulation of locomotion locomotion RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process transcription by RNA polymerase II regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process nucleic acid metabolic process regulation of DNA-templated transcription intracellular signal transduction intracellular receptor signaling pathway response to lipid regulation of signal transduction hormone-mediated signaling pathway cellular response to endogenous stimulus response to hormone regulation of intracellular signal transduction response to steroid hormone regulation of intracellular steroid hormone receptor signaling pathway androgen receptor signaling pathway nuclear receptor-mediated steroid hormone signaling pathway cellular response to steroid hormone stimulus response to organic cyclic compound steroid hormone receptor signaling pathway cellular response to hormone stimulus regulation of signaling response to endogenous stimulus cellular response to organic cyclic compound regulation of androgen receptor signaling pathway cellular response to chemical stimulus response to chemical cellular response to lipid regulation of cell communication nuclear receptor-mediated signaling pathway	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol midbody cell division site cell periphery cleavage furrow membrane plasma membrane plasma membrane region membrane-bounded organelle nucleus membrane-enclosed lumen cellular anatomical structure intracellular anatomical structure cytoplasm cytosol midbody cell division site cell periphery cleavage furrow membrane plasma membrane plasma membrane region 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 endosome intracellular vesicle endomembrane system cytoplasmic vesicle vesicle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR037317	Serine/threonine-protein kinase N1, second HR1 domain	Domain
A	IPR000719	Protein kinase domain	Domain
A	IPR017892	Protein kinase, C-terminal	Domain
A	IPR036274	HR1 repeat superfamily	Homologous Superfamily
A	IPR011072	HR1 rho-binding domain	Domain
A	IPR050236	Serine/threonine-protein kinases, AGC	Family
A	IPR017441	Protein kinase, ATP binding site	Binding Site
A	IPR037784	Serine/threonine-protein kinase N, C2 domain	Domain
A	IPR000008	C2 domain	Domain
A	IPR000961	AGC-kinase, C-terminal	Domain
A	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
A	IPR037313	Serine/threonine-protein kinase N, first HR1 domain	Domain
A	IPR035892	C2 domain superfamily	Homologous Superfamily
A	IPR008271	Serine/threonine-protein kinase, active site	Active Site

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q16512	acute myeloid leukemia colorectal adenocarcinoma Infiltrating duct carcinoma of female breast metastatic melanoma ovarian cancer aggressive systemic mastocytosis exocrine pancreatic carcinoma malignant glioma nephrolithiasis psoriasis atypical teratoid rhabdoid tumor glioblastoma mast cell leukemia osteosarcoma

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A	SEP	Parent Component: SER RESID: AA0037 PSI-MOD : O-phospho-L-serine MOD:00046
A	TPO	Parent Component: THR RESID: AA0037 , AA0038 PSI-MOD : O-phospho-L-serine MOD:00046 , O-phospho-L-threonine MOD:00047

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.