7P8X | pdb_00007p8x

Crystal Structure of leukotoxin LukE from Staphylococcus aureus in complex with a doubly sulfated CCR2 N-terminal peptide

External Resource: Annotation

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
Membrane Protein Annotation: OPM
Membrane Protein Annotation: mpstruc
Protein Modification Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Leukocidin-like	8074052	3000256	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	Leukocidin	e7p8xA1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Leukocidin-like (From Topology)	T: Leukocidin-like	F: Leukocidin	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.70.240.10	Mainly Beta	Distorted Sandwich	Leukocidin-like	Leukocidin/porin MspA	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF07968	Leukocidin/Hemolysin toxin family (Leukocidin)	Leukocidin/Hemolysin toxin family		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth M]	C-C chemokine receptor type 2	C-C chemokine binding protein binding binding chemokine binding chemokine (C-C motif) ligand 7 binding cytokine binding G protein-coupled chemoattractant receptor activity molecular transducer activity chemokine receptor activity G protein-coupled receptor activity transmembrane signaling receptor activity signaling receptor activity cytokine receptor activity immune receptor activity C-C chemokine binding protein binding binding chemokine binding chemokine (C-C motif) ligand 7 binding cytokine binding G protein-coupled chemoattractant receptor activity molecular transducer activity chemokine receptor activity G protein-coupled receptor activity transmembrane signaling receptor activity signaling receptor activity cytokine receptor activity immune receptor activity chemokine (C-C motif) ligand 2 binding CCR chemokine receptor binding signaling receptor binding cytokine receptor binding CCR2 chemokine receptor binding G protein-coupled receptor binding chemokine receptor binding identical protein binding C-C chemokine receptor activity chemokine (C-C motif) ligand 12 binding	regulation of immune effector process regulation of biological process biological regulation positive regulation of biological process positive regulation of immune complex clearance by monocytes and macrophages immune effector process immune system process regulation of immune complex clearance by monocytes and macrophages positive regulation of immune effector process regulation of immune system process positive regulation of immune system process immune complex clearance by monocytes and macrophages immune complex clearance cellular response to stimulus regulation of immune effector process regulation of biological process biological regulation positive regulation of biological process positive regulation of immune complex clearance by monocytes and macrophages immune effector process immune system process regulation of immune complex clearance by monocytes and macrophages positive regulation of immune effector process regulation of immune system process positive regulation of immune system process immune complex clearance by monocytes and macrophages immune complex clearance cellular response to stimulus regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling response to cytokine cytokine-mediated signaling pathway cell communication response to peptide response to chemical cellular process cellular response to cytokine stimulus signal transduction positive regulation of locomotion regulation of cell motility positive regulation of monocyte extravasation positive regulation of cell migration monocyte extravasation positive regulation of cell motility cellular extravasation myeloid leukocyte migration regulation of cell migration positive regulation of mononuclear cell migration cell migration cell motility regulation of mononuclear cell migration locomotion positive regulation of cellular process regulation of leukocyte migration positive regulation of leukocyte migration leukocyte migration regulation of locomotion mononuclear cell migration regulation of monocyte extravasation regulation of cellular extravasation positive regulation of cellular extravasation multicellular organismal process multicellular organismal-level homeostasis homeostatic process homeostasis of number of cells within a tissue anatomical structure homeostasis tissue homeostasis homeostasis of number of cells regulation of defense response regulation of response to external stimulus defense response response to external stimulus regulation of inflammatory response positive regulation of response to stimulus positive regulation of response to external stimulus positive regulation of inflammatory response regulation of response to stimulus regulation of response to stress response to stress positive regulation of defense response inflammatory response cell adhesion cell-cell adhesion leukocyte adhesion to vascular endothelial cell leukocyte cell-cell adhesion cellular developmental process glial cell migration regulation of glial cell migration positive regulation of chemotaxis neurogenesis multicellular organism development astrocyte chemotaxis gliogenesis taxis cell differentiation anatomical structure development astrocyte cell migration system development developmental process cell chemotaxis chemotaxis nervous system development regulation of astrocyte chemotaxis regulation of chemotaxis positive regulation of glial cell migration cellular response to chemical stimulus positive regulation of astrocyte chemotaxis positive regulation of T-helper 1 type immune response adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains positive regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains immune response regulation of adaptive immune response T-helper 1 type immune response adaptive immune response regulation of T-helper 1 type immune response regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains positive regulation of immune response regulation of immune response positive regulation of adaptive immune response negative regulation of response to stimulus negative regulation of immune response negative regulation of biological process negative regulation of type 2 immune response type 2 immune response negative regulation of immune system process regulation of type 2 immune response hemopoiesis cell development inorganic ion homeostasis intracellular calcium ion homeostasis calcium ion homeostasis cellular homeostasis chemical homeostasis intracellular monoatomic cation homeostasis monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis intracellular monoatomic ion homeostasis regulation of leukocyte differentiation regulation of developmental process regulation of leukocyte activation regulation of cell activation mononuclear cell differentiation regulation of cell differentiation lymphocyte activation lymphocyte differentiation regulation of cell development leukocyte activation regulation of T cell differentiation T cell activation T cell differentiation regulation of multicellular organismal process regulation of lymphocyte differentiation regulation of multicellular organismal development cell activation regulation of T cell activation regulation of hemopoiesis leukocyte differentiation regulation of lymphocyte activation macrophage migration regulation of macrophage migration cell surface receptor signaling pathway via STAT cell surface receptor signaling pathway via JAK-STAT dendritic cell chemotaxis dendritic cell migration leukocyte chemotaxis positive regulation of monocyte chemotaxis regulation of monocyte chemotaxis regulation of leukocyte chemotaxis positive regulation of leukocyte chemotaxis monocyte chemotaxis response to wounding lymphocyte mediated immunity T cell mediated immunity T cell cytokine production regulation of T cell cytokine production cytokine production regulation of cytokine production leukocyte mediated immunity cytokine production involved in immune response regulation of T cell mediated immunity production of molecular mediator of immune response regulation of biosynthetic process regulation of cytokine production involved in immune response regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression regulation of leukocyte mediated immunity biosynthetic process regulation of lymphocyte mediated immunity metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of production of molecular mediator of immune response regulation of metabolic process cellular defense response inflammatory response to wounding regulation of localization regulation of myeloid leukocyte mediated immunity regulated exocytosis negative regulation of transport cell activation involved in immune response leukocyte degranulation myeloid leukocyte mediated immunity vesicle-mediated transport myeloid leukocyte activation localization negative regulation of secretion establishment of localization in cell negative regulation of secretion by cell negative regulation of myeloid leukocyte mediated immunity negative regulation of immune effector process establishment of localization regulation of secretion exocytosis eosinophil mediated immunity cellular localization transport eosinophil activation negative regulation of regulated secretory pathway negative regulation of leukocyte degranulation regulation of regulated secretory pathway regulation of eosinophil degranulation secretion by cell regulation of secretion by cell negative regulation of exocytosis leukocyte activation involved in immune response negative regulation of cellular process eosinophil degranulation eosinophil activation involved in immune response regulation of leukocyte degranulation negative regulation of eosinophil degranulation secretion regulation of transport export from cell regulation of vesicle-mediated transport myeloid cell activation involved in immune response regulation of exocytosis negative regulation of leukocyte mediated immunity granulocyte activation lymphocyte chemotaxis lymphocyte migration T cell chemotaxis T-helper 17 cell chemotaxis T cell migration regulation of CD8-positive, alpha-beta T cell extravasation CD8-positive, alpha-beta T cell extravasation regulation of lymphocyte migration positive regulation of T cell extravasation regulation of T cell extravasation positive regulation of lymphocyte migration T cell extravasation positive regulation of T cell migration positive regulation of CD8-positive, alpha-beta T cell extravasation regulation of T cell migration positive regulation of cytosolic calcium ion concentration regulation of biological quality humoral immune response positive regulation of cell communication modulation of chemical synaptic transmission synaptic transmission, glutamatergic regulation of synaptic transmission, glutamatergic synaptic signaling trans-synaptic signaling regulation of signaling positive regulation of synaptic transmission cell-cell signaling positive regulation of synaptic transmission, glutamatergic chemical synaptic transmission regulation of trans-synaptic signaling anterograde trans-synaptic signaling regulation of cell communication positive regulation of signaling positive regulation of cell population proliferation regulation of alpha-beta T cell activation positive regulation of alpha-beta T cell proliferation positive regulation of cell activation alpha-beta T cell proliferation lymphocyte proliferation positive regulation of leukocyte activation alpha-beta T cell activation regulation of leukocyte proliferation cell population proliferation positive regulation of T cell activation positive regulation of lymphocyte proliferation positive regulation of T cell proliferation positive regulation of alpha-beta T cell activation regulation of cell population proliferation mononuclear cell proliferation regulation of leukocyte cell-cell adhesion positive regulation of leukocyte proliferation positive regulation of multicellular organismal process positive regulation of leukocyte cell-cell adhesion leukocyte proliferation positive regulation of cell-cell adhesion regulation of alpha-beta T cell proliferation positive regulation of lymphocyte activation positive regulation of mononuclear cell proliferation regulation of cell-cell adhesion T cell proliferation regulation of lymphocyte proliferation positive regulation of cell adhesion regulation of cell adhesion regulation of T cell proliferation regulation of mononuclear cell proliferation positive regulation of thymocyte migration thymocyte migration regulation of thymocyte migration hematopoietic stem cell migration positive regulation of hematopoietic stem cell migration regulation of hematopoietic stem cell migration response to chemokine cellular response to chemokine chemokine-mediated signaling pathway G protein-coupled receptor signaling pathway intracellular signal transduction calcium-mediated signaling intracellular signaling cassette regulation of molecular function regulation of adenylate cyclase activity regulation of catalytic activity negative regulation of molecular function negative regulation of catalytic activity negative regulation of adenylate cyclase activity positive regulation of signal transduction regulation of signal transduction glutamate receptor signaling pathway positive regulation of glutamate receptor signaling pathway regulation of glutamate receptor signaling pathway adaptive thermogenesis positive regulation of metabolic process regulation of cold-induced thermogenesis cold-induced thermogenesis temperature homeostasis positive regulation of cold-induced thermogenesis blood vessel remodeling tissue remodeling regulation of leukocyte adhesion to vascular endothelial cell leukocyte tethering or rolling positive regulation of leukocyte tethering or rolling positive regulation of leukocyte adhesion to vascular endothelial cell regulation of leukocyte tethering or rolling positive regulation of macromolecule biosynthetic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of interleukin-2 production interleukin-2 production positive regulation of interleukin-2 production positive regulation of gene expression positive regulation of cytokine production positive regulation of T cell chemotaxis regulation of lymphocyte chemotaxis regulation of T cell chemotaxis positive regulation of lymphocyte chemotaxis system process sensory perception nervous system process sensory perception of pain angiogenesis regulation of vasculature development tube morphogenesis regulation of anatomical structure morphogenesis blood vessel development blood vessel morphogenesis tube development negative regulation of blood vessel morphogenesis negative regulation of developmental process negative regulation of angiogenesis vasculature development circulatory system development negative regulation of vasculature development anatomical structure morphogenesis regulation of angiogenesis anatomical structure formation involved in morphogenesis negative regulation of multicellular organismal process regulation of tumor necrosis factor production positive regulation of tumor necrosis factor superfamily cytokine production tumor necrosis factor superfamily cytokine production positive regulation of tumor necrosis factor production tumor necrosis factor production regulation of tumor necrosis factor superfamily cytokine production vascular endothelial growth factor production regulation of vascular endothelial growth factor production regulation of type II interferon production type II interferon production positive regulation of type II interferon production import into cell neutrophil clearance neutrophil homeostasis leukocyte homeostasis phagocytosis apoptotic cell clearance myeloid cell homeostasis endocytosis	somatodendritic compartment cell body cellular anatomical structure perikaryon neuronal cell body cell periphery cell surface membrane plasma membrane external side of plasma membrane side of membrane cell projection dendrite dendritic tree somatodendritic compartment cell body cellular anatomical structure perikaryon neuronal cell body cell periphery cell surface membrane plasma membrane external side of plasma membrane side of membrane cell projection dendrite dendritic tree neuron projection plasma membrane bounded cell projection intracellular anatomical structure cytoplasm perinuclear region of cytoplasm membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle organelle lumen fibrillar center organelle membraneless organelle nuclear lumen
A	Leucotoxin LukEv	toxin activity	biological process involved in interspecies interaction between organisms cytolysis in another organism cellular process disruption of cell in another organism disruption of anatomical structure in another organism cytolysis killing of cells of another organism cell killing	cellular anatomical structure extracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth M]	IPR000355	Chemokine receptor family	Family
B [auth M]	IPR002237	CC chemokine receptor 2	Family
B [auth M]	IPR000276	G protein-coupled receptor, rhodopsin-like	Family
B [auth M]	IPR017452	GPCR, rhodopsin-like, 7TM	Domain
B [auth M]	IPR050119	C-C chemokine receptor type 1-9-like	Family
A	IPR016183	Leukocidin/Hemolysin toxin	Domain
A	IPR036435	Leukocidin/porin MspA superfamily	Homologous Superfamily
A	IPR003963	Bi-component toxin, staphylococci	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B [auth M]	Pharos: P41597	status epilepticus ulcerative colitis allergic contact dermatitis pneumonia pulmonary fibrosis allergic disease liver disease Grand Mal Status Epilepticus sarcoidosis inflammatory bowel disease autoimmune disease lung carcinoma malignant pancreatic neoplasm chronic obstructive pulmonary disease ovarian cancer status epilepticus ulcerative colitis allergic contact dermatitis pneumonia pulmonary fibrosis allergic disease liver disease Grand Mal Status Epilepticus sarcoidosis inflammatory bowel disease autoimmune disease lung carcinoma malignant pancreatic neoplasm chronic obstructive pulmonary disease ovarian cancer exocrine pancreatic carcinoma gastric carcinoma idiopathic interstitial pneumonia interstitial cystitis cancer lymphoplasmacytic lymphoma pancreatic intraductal papillary-mucinous carcinoma pneumonitis glioblastoma rheumatoid arthritis Sjogren syndrome head and neck cancer tuberculosis hepatocellular carcinoma IgA glomerulonephritis atherosclerosis lung cancer celiac disease malignant glioma chronic kidney disease osteosarcoma cutaneous lupus erythematosus pancreatic intraductal papillary-mucinous neoplasm drug-induced liver injury plasma cell myeloma gastric cancer psoriasis

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B [auth M]	OPM	Transmembrane	Beta-barrel transmembrane	Pore-forming beta-sheet toxins	Aerolysin (n=14,S=14 or n=16,S=16)

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B [auth M]	mpstruc	TRANSMEMBRANE PROTEINS: BETA-BARREL	Adventitious Membrane Proteins: Beta-sheet Pore-forming Toxins/Attack Complexes	leukotoxin LukE

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B [auth M]	ACE	RESID: AA0041 , AA0042 , AA0043 , AA0044 , AA0045 , AA0046 , AA0049 , AA0050 , AA0051 , AA0052 , AA0053 , AA0054 , AA0354 PSI-MOD : N-acetyl-L-alanine MOD:00050 , N-acetyl-L-aspartic acid MOD:00051 , N-acetyl-L-cysteine MOD:00052 , N-acetyl-S-archeol-cysteine MOD:00897 , N-acetyl-L-glutamic acid MOD:00053 , N-acetyl-L-glutamine MOD:00054 , N-acetylglycine MOD:00055 , N-acetyl-L-methionine MOD:00058 , N-acetyl-L-proline MOD:00059 , N-acetyl-L-serine MOD:00060 , N,O-diacetylated L-serine MOD:00648 , N-acetyl-L-threonine MOD:00061 , N-acetyl-L-tyrosine MOD:00062 , N-acetyl-L-valine MOD:00063 , N2-acetyl-L-arginine MOD:00359
B [auth M]	TYS	Parent Component: TYR RESID: AA0041 , AA0042 , AA0043 , AA0044 , AA0045 , AA0046 , AA0049 , AA0050 , AA0051 , AA0052 , AA0053 , AA0054 , AA0354 , AA0172 PSI-MOD : N-acetyl-L-alanine MOD:00050 , N-acetyl-L-aspartic acid MOD:00051 , N-acetyl-L-cysteine MOD:00052 , N-acetyl-S-archeol-cysteine MOD:00897 , N-acetyl-L-glutamic acid MOD:00053 , N-acetyl-L-glutamine MOD:00054 , N-acetylglycine MOD:00055 , N-acetyl-L-methionine MOD:00058 , N-acetyl-L-proline MOD:00059 , N-acetyl-L-serine MOD:00060 , N,O-diacetylated L-serine MOD:00648 , N-acetyl-L-threonine MOD:00061 , N-acetyl-L-tyrosine MOD:00062 , N-acetyl-L-valine MOD:00063 , N2-acetyl-L-arginine MOD:00359 , O4'-sulfo-L-tyrosine MOD:00181

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.