3DZG

Crystal structure of human CD38 extracellular domain, ara-F-ribose-5'-phosphate/nicotinamide complex

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Functional Information from GO Data

ChainGOidnamespacecontents
A0016323cellular_componentbasolateral plasma membrane
A0009986cellular_componentcell surface
A0070062cellular_componentextracellular exosome
A0016021cellular_componentintegral component of membrane
A0016020cellular_componentmembrane
A0005634cellular_componentnucleus
A0005886cellular_componentplasma membrane
A0030667cellular_componentsecretory granule membrane
A0042802molecular_functionidentical protein binding
A0050135molecular_functionNAD(P)+ nucleosidase activity
A0003953molecular_functionNAD+ nucleosidase activity
A0061809molecular_functionNAD+ nucleotidase, cyclic ADP-ribose generating
A0016849molecular_functionphosphorus-oxygen lyase activity
A0016740molecular_functiontransferase activity
A0097190biological_processapoptotic signaling pathway
A0014824biological_processartery smooth muscle contraction
A0050853biological_processB cell receptor signaling pathway
A0007565biological_processfemale pregnancy
A0060292biological_processlong-term synaptic depression
A0019674biological_processNAD metabolic process
A0043066biological_processnegative regulation of apoptotic process
A0045779biological_processnegative regulation of bone resorption
A0010977biological_processnegative regulation of neuron projection development
A0045892biological_processnegative regulation of transcription, DNA-templated
A0030890biological_processpositive regulation of B cell proliferation
A0030307biological_processpositive regulation of cell growth
A0007204biological_processpositive regulation of cytosolic calcium ion concentration
A0032024biological_processpositive regulation of insulin secretion
A0045893biological_processpositive regulation of transcription, DNA-templated
A0045907biological_processpositive regulation of vasoconstriction
A0042493biological_processresponse to drug
A0032355biological_processresponse to estradiol
A0033194biological_processresponse to hydroperoxide
A0001666biological_processresponse to hypoxia
A0070555biological_processresponse to interleukin-1
A0032570biological_processresponse to progesterone
A0032526biological_processresponse to retinoic acid
A0007165biological_processsignal transduction
B0016323cellular_componentbasolateral plasma membrane
B0009986cellular_componentcell surface
B0070062cellular_componentextracellular exosome
B0016021cellular_componentintegral component of membrane
B0016020cellular_componentmembrane
B0005634cellular_componentnucleus
B0005886cellular_componentplasma membrane
B0030667cellular_componentsecretory granule membrane
B0042802molecular_functionidentical protein binding
B0050135molecular_functionNAD(P)+ nucleosidase activity
B0003953molecular_functionNAD+ nucleosidase activity
B0061809molecular_functionNAD+ nucleotidase, cyclic ADP-ribose generating
B0016849molecular_functionphosphorus-oxygen lyase activity
B0016740molecular_functiontransferase activity
B0097190biological_processapoptotic signaling pathway
B0014824biological_processartery smooth muscle contraction
B0050853biological_processB cell receptor signaling pathway
B0007565biological_processfemale pregnancy
B0060292biological_processlong-term synaptic depression
B0019674biological_processNAD metabolic process
B0043066biological_processnegative regulation of apoptotic process
B0045779biological_processnegative regulation of bone resorption
B0010977biological_processnegative regulation of neuron projection development
B0045892biological_processnegative regulation of transcription, DNA-templated
B0030890biological_processpositive regulation of B cell proliferation
B0030307biological_processpositive regulation of cell growth
B0007204biological_processpositive regulation of cytosolic calcium ion concentration
B0032024biological_processpositive regulation of insulin secretion
B0045893biological_processpositive regulation of transcription, DNA-templated
B0045907biological_processpositive regulation of vasoconstriction
B0042493biological_processresponse to drug
B0032355biological_processresponse to estradiol
B0033194biological_processresponse to hydroperoxide
B0001666biological_processresponse to hypoxia
B0070555biological_processresponse to interleukin-1
B0032570biological_processresponse to progesterone
B0032526biological_processresponse to retinoic acid
B0007165biological_processsignal transduction
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Functional Information from PDB Data

site_idNumber of ResiduesDetails
AC114BINDING SITE FOR RESIDUE RF5 A 301
ChainResidue
ATRP125
ASER126
AARG127
ALEU145
ASER193
ASER220
ATHR221
APHE222
AGLU226
ANCA302
AHOH303
AHOH373
AHOH401
AHOH483

AC28BINDING SITE FOR RESIDUE NCA A 302
ChainResidue
ALEU145
AGLU146
AASP155
ATRP189
ASER193
ARF5301
AHOH328
AHOH466

AC313BINDING SITE FOR RESIDUE RF5 B 301
ChainResidue
BTRP125
BSER126
BARG127
BLEU145
BSER193
BSER220
BTHR221
BPHE222
BGLU226
BNCA302
BHOH456
BHOH522
BHOH610

AC47BINDING SITE FOR RESIDUE NCA B 302
ChainResidue
BGLU146
BASP155
BTRP189
BSER193
BRF5301
BHOH459
BHOH558

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Functional Information from PDB atom coordinates for the "HETATM" binding sites

site_idNumber of ResiduesDetails
RF5_3dzg_A_301142-DEOXY-2-FLUORO-5-O-PHOSPHONO-ALPHA-D-ARABINOFURANOSE binding site
ChainResidueligand
ALEU123-ARG127RF5: 2-DEOXY-2-FLUORO-5-O-PHOSPHONO-ALPHA-D-ARABINOFURANOSE
ALEU145-GLU146RF5: 2-DEOXY-2-FLUORO-5-O-PHOSPHONO-ALPHA-D-ARABINOFURANOSE
ASER193RF5: 2-DEOXY-2-FLUORO-5-O-PHOSPHONO-ALPHA-D-ARABINOFURANOSE
APHE196RF5: 2-DEOXY-2-FLUORO-5-O-PHOSPHONO-ALPHA-D-ARABINOFURANOSE
ASER220-GLY223RF5: 2-DEOXY-2-FLUORO-5-O-PHOSPHONO-ALPHA-D-ARABINOFURANOSE
AGLU226RF5: 2-DEOXY-2-FLUORO-5-O-PHOSPHONO-ALPHA-D-ARABINOFURANOSE

NCA_3dzg_A_30210NICOTINAMIDE binding site
ChainResidueligand
ATRP125NCA: NICOTINAMIDE
ALYS129NCA: NICOTINAMIDE
ALEU145-GLU146NCA: NICOTINAMIDE
AASP155-ASP156NCA: NICOTINAMIDE
ATRP189NCA: NICOTINAMIDE
ASER193NCA: NICOTINAMIDE
ATHR221NCA: NICOTINAMIDE
AGLU226NCA: NICOTINAMIDE

RF5_3dzg_B_301132-DEOXY-2-FLUORO-5-O-PHOSPHONO-ALPHA-D-ARABINOFURANOSE binding site
ChainResidueligand
BLEU124-ARG127RF5: 2-DEOXY-2-FLUORO-5-O-PHOSPHONO-ALPHA-D-ARABINOFURANOSE
BLEU145-GLU146RF5: 2-DEOXY-2-FLUORO-5-O-PHOSPHONO-ALPHA-D-ARABINOFURANOSE
BSER193RF5: 2-DEOXY-2-FLUORO-5-O-PHOSPHONO-ALPHA-D-ARABINOFURANOSE
BPHE196RF5: 2-DEOXY-2-FLUORO-5-O-PHOSPHONO-ALPHA-D-ARABINOFURANOSE
BSER220-GLY223RF5: 2-DEOXY-2-FLUORO-5-O-PHOSPHONO-ALPHA-D-ARABINOFURANOSE
BGLU226RF5: 2-DEOXY-2-FLUORO-5-O-PHOSPHONO-ALPHA-D-ARABINOFURANOSE

NCA_3dzg_B_3029NICOTINAMIDE binding site
ChainResidueligand
BTRP125NCA: NICOTINAMIDE
BLYS129NCA: NICOTINAMIDE
BLEU145-GLU146NCA: NICOTINAMIDE
BASP155NCA: NICOTINAMIDE
BTRP189NCA: NICOTINAMIDE
BSER193NCA: NICOTINAMIDE
BTHR221NCA: NICOTINAMIDE
BGLU226NCA: NICOTINAMIDE

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Functional Information from PROSITE/UniProt

site_idNumber of ResiduesDetails
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Functional Information from SwissProt/UniProt

site_idNumber of ResiduesDetails
SWS_FT_FI12{ECO:0000269|PubMed:7961800}.
ChainResidueDetails
ACYS81
ACYS163

SWS_FT_FI221Helical; Signal-anchor for type II membrane protein. {ECO:0000255}.
ChainResidueDetails
ANA*

SWS_FT_FI32{ECO:0000269|PubMed:7961800}.
ChainResidueDetails
BCYS81
BCYS163

SWS_FT_FI421Helical; Signal-anchor for type II membrane protein. {ECO:0000255}.
ChainResidueDetails
BNA*

CSA12Annotated By Reference To The Literature 1r16
ChainResidueDetails
AGLU226
AGLU146

CSA22Annotated By Reference To The Literature 1r16
ChainResidueDetails
BGLU226
BGLU146

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Catalytic Information from CSA

site_idNumber of ResiduesDetails
CSA12Annotated By Reference To The Literature 1r16
ChainResidueDetails
AGLU226
AGLU146

CSA22Annotated By Reference To The Literature 1r16
ChainResidueDetails
BGLU226
BGLU146