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4L02

Crystal Structure of SphK1 with inhibitor

Functional Information from GO Data
ChainGOidnamespacecontents
A0000287molecular_functionmagnesium ion binding
A0001568biological_processblood vessel development
A0001727molecular_functionlipid kinase activity
A0003376biological_processsphingosine-1-phosphate receptor signaling pathway
A0003677molecular_functionDNA binding
A0005515molecular_functionprotein binding
A0005516molecular_functioncalmodulin binding
A0005524molecular_functionATP binding
A0005634cellular_componentnucleus
A0005654cellular_componentnucleoplasm
A0005737cellular_componentcytoplasm
A0005768cellular_componentendosome
A0005829cellular_componentcytosol
A0005886cellular_componentplasma membrane
A0005905cellular_componentclathrin-coated pit
A0006473biological_processprotein acetylation
A0006629biological_processlipid metabolic process
A0006670biological_processsphingosine metabolic process
A0006954biological_processinflammatory response
A0007420biological_processbrain development
A0008283biological_processcell population proliferation
A0008284biological_processpositive regulation of cell population proliferation
A0008289molecular_functionlipid binding
A0008481molecular_functionsphinganine kinase activity
A0010008cellular_componentendosome membrane
A0010800biological_processpositive regulation of peptidyl-threonine phosphorylation
A0010803biological_processregulation of tumor necrosis factor-mediated signaling pathway
A0016020cellular_componentmembrane
A0016301molecular_functionkinase activity
A0016310biological_processphosphorylation
A0016407molecular_functionacetyltransferase activity
A0017050molecular_functionD-erythro-sphingosine kinase activity
A0019722biological_processcalcium-mediated signaling
A0030100biological_processregulation of endocytosis
A0030139cellular_componentendocytic vesicle
A0030148biological_processsphingolipid biosynthetic process
A0030307biological_processpositive regulation of cell growth
A0030335biological_processpositive regulation of cell migration
A0031398biological_processpositive regulation of protein ubiquitination
A0031901cellular_componentearly endosome membrane
A0032651biological_processregulation of interleukin-1 beta production
A0032740biological_processpositive regulation of interleukin-17 production
A0034612biological_processresponse to tumor necrosis factor
A0035556biological_processintracellular signal transduction
A0035924biological_processcellular response to vascular endothelial growth factor stimulus
A0038036molecular_functionsphingosine-1-phosphate receptor activity
A0043066biological_processnegative regulation of apoptotic process
A0043231cellular_componentintracellular membrane-bounded organelle
A0045202cellular_componentsynapse
A0045766biological_processpositive regulation of angiogenesis
A0045840biological_processpositive regulation of mitotic nuclear division
A0045931biological_processpositive regulation of mitotic cell cycle
A0045987biological_processpositive regulation of smooth muscle contraction
A0046512biological_processsphingosine biosynthetic process
A0046521biological_processsphingoid catabolic process
A0048146biological_processpositive regulation of fibroblast proliferation
A0050764biological_processregulation of phagocytosis
A0051092biological_processpositive regulation of NF-kappaB transcription factor activity
A0051721molecular_functionprotein phosphatase 2A binding
A0070301biological_processcellular response to hydrogen peroxide
A0071363biological_processcellular response to growth factor stimulus
A0071897biological_processDNA biosynthetic process
A0090520biological_processsphingolipid mediated signaling pathway
A0098793cellular_componentpresynapse
A0150077biological_processregulation of neuroinflammatory response
A1900060biological_processnegative regulation of ceramide biosynthetic process
A1900745biological_processpositive regulation of p38MAPK cascade
A1901224biological_processpositive regulation of non-canonical NF-kappaB signal transduction
A1903978biological_processregulation of microglial cell activation
A1905364biological_processregulation of endosomal vesicle fusion
B0000287molecular_functionmagnesium ion binding
B0001568biological_processblood vessel development
B0001727molecular_functionlipid kinase activity
B0003376biological_processsphingosine-1-phosphate receptor signaling pathway
B0003677molecular_functionDNA binding
B0005515molecular_functionprotein binding
B0005516molecular_functioncalmodulin binding
B0005524molecular_functionATP binding
B0005634cellular_componentnucleus
B0005654cellular_componentnucleoplasm
B0005737cellular_componentcytoplasm
B0005768cellular_componentendosome
B0005829cellular_componentcytosol
B0005886cellular_componentplasma membrane
B0005905cellular_componentclathrin-coated pit
B0006473biological_processprotein acetylation
B0006629biological_processlipid metabolic process
B0006670biological_processsphingosine metabolic process
B0006954biological_processinflammatory response
B0007420biological_processbrain development
B0008283biological_processcell population proliferation
B0008284biological_processpositive regulation of cell population proliferation
B0008289molecular_functionlipid binding
B0008481molecular_functionsphinganine kinase activity
B0010008cellular_componentendosome membrane
B0010800biological_processpositive regulation of peptidyl-threonine phosphorylation
B0010803biological_processregulation of tumor necrosis factor-mediated signaling pathway
B0016020cellular_componentmembrane
B0016301molecular_functionkinase activity
B0016310biological_processphosphorylation
B0016407molecular_functionacetyltransferase activity
B0017050molecular_functionD-erythro-sphingosine kinase activity
B0019722biological_processcalcium-mediated signaling
B0030100biological_processregulation of endocytosis
B0030139cellular_componentendocytic vesicle
B0030148biological_processsphingolipid biosynthetic process
B0030307biological_processpositive regulation of cell growth
B0030335biological_processpositive regulation of cell migration
B0031398biological_processpositive regulation of protein ubiquitination
B0031901cellular_componentearly endosome membrane
B0032651biological_processregulation of interleukin-1 beta production
B0032740biological_processpositive regulation of interleukin-17 production
B0034612biological_processresponse to tumor necrosis factor
B0035556biological_processintracellular signal transduction
B0035924biological_processcellular response to vascular endothelial growth factor stimulus
B0038036molecular_functionsphingosine-1-phosphate receptor activity
B0043066biological_processnegative regulation of apoptotic process
B0043231cellular_componentintracellular membrane-bounded organelle
B0045202cellular_componentsynapse
B0045766biological_processpositive regulation of angiogenesis
B0045840biological_processpositive regulation of mitotic nuclear division
B0045931biological_processpositive regulation of mitotic cell cycle
B0045987biological_processpositive regulation of smooth muscle contraction
B0046512biological_processsphingosine biosynthetic process
B0046521biological_processsphingoid catabolic process
B0048146biological_processpositive regulation of fibroblast proliferation
B0050764biological_processregulation of phagocytosis
B0051092biological_processpositive regulation of NF-kappaB transcription factor activity
B0051721molecular_functionprotein phosphatase 2A binding
B0070301biological_processcellular response to hydrogen peroxide
B0071363biological_processcellular response to growth factor stimulus
B0071897biological_processDNA biosynthetic process
B0090520biological_processsphingolipid mediated signaling pathway
B0098793cellular_componentpresynapse
B0150077biological_processregulation of neuroinflammatory response
B1900060biological_processnegative regulation of ceramide biosynthetic process
B1900745biological_processpositive regulation of p38MAPK cascade
B1901224biological_processpositive regulation of non-canonical NF-kappaB signal transduction
B1903978biological_processregulation of microglial cell activation
B1905364biological_processregulation of endosomal vesicle fusion
C0000287molecular_functionmagnesium ion binding
C0001568biological_processblood vessel development
C0001727molecular_functionlipid kinase activity
C0003376biological_processsphingosine-1-phosphate receptor signaling pathway
C0003677molecular_functionDNA binding
C0005515molecular_functionprotein binding
C0005516molecular_functioncalmodulin binding
C0005524molecular_functionATP binding
C0005634cellular_componentnucleus
C0005654cellular_componentnucleoplasm
C0005737cellular_componentcytoplasm
C0005768cellular_componentendosome
C0005829cellular_componentcytosol
C0005886cellular_componentplasma membrane
C0005905cellular_componentclathrin-coated pit
C0006473biological_processprotein acetylation
C0006629biological_processlipid metabolic process
C0006670biological_processsphingosine metabolic process
C0006954biological_processinflammatory response
C0007420biological_processbrain development
C0008283biological_processcell population proliferation
C0008284biological_processpositive regulation of cell population proliferation
C0008289molecular_functionlipid binding
C0008481molecular_functionsphinganine kinase activity
C0010008cellular_componentendosome membrane
C0010800biological_processpositive regulation of peptidyl-threonine phosphorylation
C0010803biological_processregulation of tumor necrosis factor-mediated signaling pathway
C0016020cellular_componentmembrane
C0016301molecular_functionkinase activity
C0016310biological_processphosphorylation
C0016407molecular_functionacetyltransferase activity
C0017050molecular_functionD-erythro-sphingosine kinase activity
C0019722biological_processcalcium-mediated signaling
C0030100biological_processregulation of endocytosis
C0030139cellular_componentendocytic vesicle
C0030148biological_processsphingolipid biosynthetic process
C0030307biological_processpositive regulation of cell growth
C0030335biological_processpositive regulation of cell migration
C0031398biological_processpositive regulation of protein ubiquitination
C0031901cellular_componentearly endosome membrane
C0032651biological_processregulation of interleukin-1 beta production
C0032740biological_processpositive regulation of interleukin-17 production
C0034612biological_processresponse to tumor necrosis factor
C0035556biological_processintracellular signal transduction
C0035924biological_processcellular response to vascular endothelial growth factor stimulus
C0038036molecular_functionsphingosine-1-phosphate receptor activity
C0043066biological_processnegative regulation of apoptotic process
C0043231cellular_componentintracellular membrane-bounded organelle
C0045202cellular_componentsynapse
C0045766biological_processpositive regulation of angiogenesis
C0045840biological_processpositive regulation of mitotic nuclear division
C0045931biological_processpositive regulation of mitotic cell cycle
C0045987biological_processpositive regulation of smooth muscle contraction
C0046512biological_processsphingosine biosynthetic process
C0046521biological_processsphingoid catabolic process
C0048146biological_processpositive regulation of fibroblast proliferation
C0050764biological_processregulation of phagocytosis
C0051092biological_processpositive regulation of NF-kappaB transcription factor activity
C0051721molecular_functionprotein phosphatase 2A binding
C0070301biological_processcellular response to hydrogen peroxide
C0071363biological_processcellular response to growth factor stimulus
C0071897biological_processDNA biosynthetic process
C0090520biological_processsphingolipid mediated signaling pathway
C0098793cellular_componentpresynapse
C0150077biological_processregulation of neuroinflammatory response
C1900060biological_processnegative regulation of ceramide biosynthetic process
C1900745biological_processpositive regulation of p38MAPK cascade
C1901224biological_processpositive regulation of non-canonical NF-kappaB signal transduction
C1903978biological_processregulation of microglial cell activation
C1905364biological_processregulation of endosomal vesicle fusion
Functional Information from PDB Data
site_idAC1
Number of Residues15
DetailsBINDING SITE FOR RESIDUE 1V2 A 401
ChainResidue
AASP81
AMET272
APHE288
APHE303
AHIS311
AALA339
AHOH519
ASER168
APHE173
AVAL177
AASP178
APHE192
ATHR196
ALEU261
ALEU268

site_idAC2
Number of Residues18
DetailsBINDING SITE FOR RESIDUE 1V2 B 401
ChainResidue
BASP81
BSER168
BPHE173
BILE174
BVAL177
BASP178
BPHE192
BTHR196
BLEU261
BLEU268
BMET272
BPHE288
BLEU299
BPHE303
BMET306
BHIS311
BLEU319
BHOH516

site_idAC3
Number of Residues16
DetailsBINDING SITE FOR RESIDUE 1V2 C 401
ChainResidue
CASP81
CSER168
CPHE173
CILE174
CVAL177
CASP178
CPHE192
CTHR196
CLEU261
CLEU268
CMET272
CPHE288
CPHE303
CHIS311
CLEU319
CHOH501

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues3
DetailsACT_SITE: Proton donor/acceptor => ECO:0000269|PubMed:23602659
ChainResidueDetails
AASP81
BASP81
CASP81

site_idSWS_FT_FI2
Number of Residues27
DetailsBINDING: BINDING => ECO:0000269|PubMed:23602659
ChainResidueDetails
AASN22
BASN22
BTHR54
BSER79
BGLU86
BGLY111
BASP178
BARG185
BARG191
BASP341
CASN22
ATHR54
CTHR54
CSER79
CGLU86
CGLY111
CASP178
CARG185
CARG191
CASP341
ASER79
AGLU86
AGLY111
AASP178
AARG185
AARG191
AASP341

site_idSWS_FT_FI3
Number of Residues3
DetailsMOD_RES: Phosphothreonine => ECO:0007744|PubMed:18669648
ChainResidueDetails
ATHR193
BTHR193
CTHR193

site_idSWS_FT_FI4
Number of Residues3
DetailsMOD_RES: Phosphoserine => ECO:0000269|PubMed:20577214
ChainResidueDetails
ASER225
BSER225
CSER225

219140

PDB entries from 2024-05-01

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