Structure of PDB 6c02 Chain A

Receptor sequence
>6c02A (length=815) Species: 9606 (Homo sapiens) [Search protein sequence]
GSCRKKCFDASFRGLENCRCDVACKDRGDCCWDFEDTCVESTRIWMCNKF
RCGETRLEASLCSCSDDCLQRKDCCADYKSVCQGETSWLEENCDQCPEGF
DLPPVILFSMDGFRAEYLYTWDTLMPNINKLKTCGIHSKYMRAMYPTKAF
PNHYTIVTGLYPESHGIIDNNMYDVNLNKNFSLSSKEQNNPAWWHGQPMW
LTAMYQGLKAATYFWPGSEVAINGSFPSIYMPYNGSVPFEERISTLLKWL
DLPKAERPRFYTMYFEEPDSSGHAGGPVSARVIKALQVVDHAFGMLMEGL
KQRNLHNCVNIILLADHGMDQTYCNKMEYMTDYFPRINFFYMYEGPAPRI
RAHNIPHDFFSFNSEEIVRNLSCRKPDQHFKPYLTPDLPKRLHYAKNVRI
DKVHLFVDQQWLAVRSKSNTNCGGGNHGYNNEFRSMEAIFLAHGPSFKEK
TEVEPFENIEVYNLMCDLLRIQPAPNNGTHGSLNHLLKVPFYEPSHAEEV
SKFSVCGFANPLPTESLDCFCPHLQNSTQLEQVNQMLSLTQEEITATVKV
NLPFGRPRVLQKNVDHCLLYHREYVSGFGKAMRMPMWSSYTVPQLGDTSP
LPPTVPDCLRADVRVPPSESQKCSFYLADKNITHGFLYPPASNRTSDSQY
DALITSNLVPMYEEFRKMWDYFHSVLLIKHATERNGVNVVSGPIFDYNYD
GHFDAPDEITKHLANTDVPIPTHYFVVLTSCKNKSHTPENCPGWLDVLPF
IIPHRPTNVESCPEGKPEALWVEERFTAHIARVRDVELLTGLDFYQDKVQ
PVSEILQLKTYLPTF
3D structure
PDB6c02 Structural basis for nucleotide recognition by the ectoenzyme CD203c.
ChainA
Resolution1.942 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 3.1.4.1: phosphodiesterase I.
3.6.1.9: nucleotide diphosphatase.
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 FUC A H579 V661 D703 Y706 H523 V605 D647 Y650
BS02 ZN A D325 H329 H483 D269 H273 H427
BS03 ZN A D167 D372 H373 D111 D316 H317
BS04 CA A D752 N754 D756 H758 F759 D760 D696 N698 D700 H702 F703 D704
BS05 APC A K204 A205 F206 N226 E275 Y289 Y320 D325 H483 K148 A149 F150 N170 E219 Y233 Y264 D269 H427
Gene Ontology
Molecular Function
GO:0003676 nucleic acid binding
GO:0004081 bis(5'-nucleosyl)-tetraphosphatase (asymmetrical) activity
GO:0004528 phosphodiesterase I activity
GO:0005509 calcium ion binding
GO:0008270 zinc ion binding
GO:0016787 hydrolase activity
GO:0034432 bis(5'-adenosyl)-pentaphosphatase activity
GO:0036219 GTP diphosphatase activity
GO:0036221 UTP diphosphatase activity
GO:0046872 metal ion binding
GO:0047429 nucleoside triphosphate diphosphatase activity
GO:0047693 ATP diphosphatase activity
GO:0047710 bis(5'-adenosyl)-triphosphatase activity
Biological Process
GO:0002276 basophil activation involved in immune response
GO:0006220 pyrimidine nucleotide metabolic process
GO:0006796 phosphate-containing compound metabolic process
GO:0009143 nucleoside triphosphate catabolic process
GO:0030505 inorganic diphosphate transport
GO:0033007 negative regulation of mast cell activation involved in immune response
GO:0046034 ATP metabolic process
GO:0050728 negative regulation of inflammatory response
GO:0055062 phosphate ion homeostasis
GO:0070667 negative regulation of mast cell proliferation
Cellular Component
GO:0005576 extracellular region
GO:0005886 plasma membrane
GO:0009897 external side of plasma membrane
GO:0016324 apical plasma membrane
GO:0048471 perinuclear region of cytoplasm
GO:0070062 extracellular exosome

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:6c02, PDBe:6c02, PDBj:6c02
PDBsum6c02
PubMed29717535
UniProtO14638|ENPP3_HUMAN Ectonucleotide pyrophosphatase/phosphodiesterase family member 3 (Gene Name=ENPP3)

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