Details of the Target

General Information of Target

Target ID LDTP12886
Target Name Glycerophosphodiester phosphodiesterase 1 (GDE1)
Gene Name GDE1
Gene ID 51573
Synonyms
MIR16; Glycerophosphodiester phosphodiesterase 1; Glycerophosphoinositol glycerophosphodiesterase GDE1; EC 3.1.4.44; Lysophospholipase D GDE1; EC 3.1.4.-; Membrane-interacting protein of RGS16; RGS16-interacting membrane protein
3D Structure
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2D Sequence (FASTA)
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3D Structure (PDB)
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Sequence
MEPLRLLILLFVTELSGAHNTTVFQGVAGQSLQVSCPYDSMKHWGRRKAWCRQLGEKGPC
QRVVSTHNLWLLSFLRRWNGSTAITDDTLGGTLTITLRNLQPHDAGLYQCQSLHGSEADT
LRKVLVEVLADPLDHRDAGDLWFPGESESFEDAHVEHSISRSLLEGEIPFPPTSILLLLA
CIFLIKILAASALWAAAWHGQKPGTHPPSELDCGHDPGYQLQTLPGLRDT
Target Bioclass
Enzyme
Family
Glycerophosphoryl diester phosphodiesterase family
Subcellular location
Cell membrane
Function
Hydrolyzes the phosphodiester bond of glycerophosphodiesters such as glycerophosphoinositol (GroPIns) and glycerophosphoethanolamine (GroPEth), to yield a glycerol phosphate and an alcohol. Hydrolyzes glycerophospho-N-acylethanolamines to N-acylethanolamines in the brain and participates in bioactive N-acylethanolamine biosynthesis such as anandamide (an endocannabinoid), N-palmitoylethanolamine (an anti-inflammatory), and N-oleoylethanolamine (an anorexic). In addition, has a lysophospholipase D activity by hydrolyzing N-acyl-lysoplasmenylethanolamine (N-acyl-lysoPlsEt) to N-acylethanolamine. However lysophospholipase D activity is lower than glycerophosphodiester phosphodiesterase activity. Has little or no activity towards glycerophosphocholine.
Uniprot ID
Q9NZC3
Ensemble ID
ENST00000353258.8
HGNC ID
HGNC:29644

Probe(s) Labeling This Target

ABPP Probe
Click To Hide/Show 11 Probe Related to This Target
Probe name Structure Binding Site(Ratio) Interaction ID Ref
DA-P2
 Probe Info  		7.88  LDD0348  [1]
HRP
 Probe Info  		4.89  LDD0347  [1]
DBIA
 Probe Info  		C127(0.91)  LDD1492  [2]
4-Iodoacetamidophenylacetylene
 Probe Info  		N.A.  LDD0038  [3]
IA-alkyne
 Probe Info  		N.A.  LDD0036  [3]
Lodoacetamide azide
 Probe Info  		N.A.  LDD0037  [3]
JW-RF-010
 Probe Info  		N.A.  LDD0026  [4]
IPM
 Probe Info  		N.A.  LDD0147  [4]
YN-1
 Probe Info  		N.A.  LDD0447  [5]
Acrolein
 Probe Info  		N.A.  LDD0217  [6]
NAIA_5
 Probe Info  		N.A.  LDD2223  [7]
PAL-AfBPP Probe
Click To Hide/Show 13 Probe Related to This Target
Probe name Structure Binding Site(Ratio) Interaction ID Ref
C053
 Probe Info  		6.63  LDD1751  [8]
C056
 Probe Info  		19.43  LDD1753  [8]
C063
 Probe Info  		10.70  LDD1760  [8]
C102
 Probe Info  		9.13  LDD1790  [8]
C106
 Probe Info  		21.71  LDD1793  [8]
C134
 Probe Info  		31.34  LDD1816  [8]
C135
 Probe Info  		12.55  LDD1817  [8]
C169
 Probe Info  		20.97  LDD1849  [8]
C355
 Probe Info  		39.12  LDD2016  [8]
C356
 Probe Info  		12.38  LDD2017  [8]
C357
 Probe Info  		5.50  LDD2018  [8]
C390
 Probe Info  		31.78  LDD2049  [8]
C391
 Probe Info  		14.12  LDD2050  [8]

Competitor(s) Related to This Target

Competitor ID Name Cell line Binding Site(Ratio) Interaction ID Ref
 LDCM0215  AC10 HEK-293T C127(0.86)  LDD1508  [2]
 LDCM0226  AC11 HEK-293T C127(0.96)  LDD1509  [2]
 LDCM0237  AC12 HEK-293T C127(0.90)  LDD1510  [2]
 LDCM0259  AC14 HEK-293T C127(0.97)  LDD1512  [2]
 LDCM0270  AC15 HEK-293T C127(0.98)  LDD1513  [2]
 LDCM0277  AC18 HEK-293T C127(0.93)  LDD1516  [2]
 LDCM0278  AC19 HEK-293T C127(0.93)  LDD1517  [2]
 LDCM0279  AC2 HEK-293T C127(0.94)  LDD1518  [2]
 LDCM0280  AC20 HEK-293T C127(0.85)  LDD1519  [2]
 LDCM0281  AC21 HEK-293T C127(1.00)  LDD1520  [2]
 LDCM0282  AC22 HEK-293T C127(0.94)  LDD1521  [2]
 LDCM0283  AC23 HEK-293T C127(1.05)  LDD1522  [2]
 LDCM0284  AC24 HEK-293T C127(1.07)  LDD1523  [2]
 LDCM0286  AC26 HEK-293T C127(1.07)  LDD1525  [2]
 LDCM0287  AC27 HEK-293T C127(0.88)  LDD1526  [2]
 LDCM0288  AC28 HEK-293T C127(0.95)  LDD1527  [2]
 LDCM0289  AC29 HEK-293T C127(1.00)  LDD1528  [2]
 LDCM0290  AC3 HEK-293T C127(0.95)  LDD1529  [2]
 LDCM0291  AC30 HEK-293T C127(1.06)  LDD1530  [2]
 LDCM0292  AC31 HEK-293T C127(1.05)  LDD1531  [2]
 LDCM0293  AC32 HEK-293T C127(0.95)  LDD1532  [2]
 LDCM0295  AC34 HEK-293T C127(0.99)  LDD1534  [2]
 LDCM0296  AC35 HEK-293T C127(1.02)  LDD1535  [2]
 LDCM0297  AC36 HEK-293T C127(0.91)  LDD1536  [2]
 LDCM0298  AC37 HEK-293T C127(1.02)  LDD1537  [2]
 LDCM0299  AC38 HEK-293T C127(0.99)  LDD1538  [2]
 LDCM0300  AC39 HEK-293T C127(1.04)  LDD1539  [2]
 LDCM0301  AC4 HEK-293T C127(0.92)  LDD1540  [2]
 LDCM0302  AC40 HEK-293T C127(1.03)  LDD1541  [2]
 LDCM0304  AC42 HEK-293T C127(0.95)  LDD1543  [2]
 LDCM0305  AC43 HEK-293T C127(1.01)  LDD1544  [2]
 LDCM0306  AC44 HEK-293T C127(0.96)  LDD1545  [2]
 LDCM0307  AC45 HEK-293T C127(1.05)  LDD1546  [2]
 LDCM0308  AC46 HEK-293T C127(0.97)  LDD1547  [2]
 LDCM0309  AC47 HEK-293T C127(1.16)  LDD1548  [2]
 LDCM0310  AC48 HEK-293T C127(1.02)  LDD1549  [2]
 LDCM0312  AC5 HEK-293T C127(1.05)  LDD1551  [2]
 LDCM0313  AC50 HEK-293T C127(1.07)  LDD1552  [2]
 LDCM0314  AC51 HEK-293T C127(1.06)  LDD1553  [2]
 LDCM0315  AC52 HEK-293T C127(0.77)  LDD1554  [2]
 LDCM0316  AC53 HEK-293T C127(1.01)  LDD1555  [2]
 LDCM0317  AC54 HEK-293T C127(0.97)  LDD1556  [2]
 LDCM0318  AC55 HEK-293T C127(1.07)  LDD1557  [2]
 LDCM0319  AC56 HEK-293T C127(1.05)  LDD1558  [2]
 LDCM0321  AC58 HEK-293T C127(0.98)  LDD1560  [2]
 LDCM0322  AC59 HEK-293T C127(1.02)  LDD1561  [2]
 LDCM0323  AC6 HEK-293T C127(0.93)  LDD1562  [2]
 LDCM0324  AC60 HEK-293T C127(1.04)  LDD1563  [2]
 LDCM0325  AC61 HEK-293T C127(0.99)  LDD1564  [2]
 LDCM0326  AC62 HEK-293T C127(0.99)  LDD1565  [2]
 LDCM0327  AC63 HEK-293T C127(0.97)  LDD1566  [2]
 LDCM0328  AC64 HEK-293T C127(1.04)  LDD1567  [2]
 LDCM0334  AC7 HEK-293T C127(1.01)  LDD1568  [2]
 LDCM0345  AC8 HEK-293T C127(1.02)  LDD1569  [2]
 LDCM0248  AKOS034007472 HEK-293T C127(0.99)  LDD1511  [2]
 LDCM0275  AKOS034007705 HEK-293T C127(1.04)  LDD1514  [2]
 LDCM0367  CL1 HEK-293T C127(1.10)  LDD1571  [2]
 LDCM0368  CL10 HEK-293T C127(1.00)  LDD1572  [2]
 LDCM0369  CL100 HEK-293T C127(1.01)  LDD1573  [2]
 LDCM0370  CL101 HEK-293T C127(0.95)  LDD1574  [2]
 LDCM0371  CL102 HEK-293T C127(1.04)  LDD1575  [2]
 LDCM0372  CL103 HEK-293T C127(0.93)  LDD1576  [2]
 LDCM0373  CL104 HEK-293T C127(0.89)  LDD1577  [2]
 LDCM0374  CL105 HEK-293T C127(0.97)  LDD1578  [2]
 LDCM0375  CL106 HEK-293T C127(1.07)  LDD1579  [2]
 LDCM0376  CL107 HEK-293T C127(0.96)  LDD1580  [2]
 LDCM0377  CL108 HEK-293T C127(0.92)  LDD1581  [2]
 LDCM0378  CL109 HEK-293T C127(1.00)  LDD1582  [2]
 LDCM0379  CL11 HEK-293T C127(1.05)  LDD1583  [2]
 LDCM0380  CL110 HEK-293T C127(0.97)  LDD1584  [2]
 LDCM0381  CL111 HEK-293T C127(0.98)  LDD1585  [2]
 LDCM0382  CL112 HEK-293T C127(0.91)  LDD1586  [2]
 LDCM0383  CL113 HEK-293T C127(1.12)  LDD1587  [2]
 LDCM0384  CL114 HEK-293T C127(0.94)  LDD1588  [2]
 LDCM0385  CL115 HEK-293T C127(0.97)  LDD1589  [2]
 LDCM0386  CL116 HEK-293T C127(0.97)  LDD1590  [2]
 LDCM0387  CL117 HEK-293T C127(0.97)  LDD1591  [2]
 LDCM0388  CL118 HEK-293T C127(1.01)  LDD1592  [2]
 LDCM0389  CL119 HEK-293T C127(0.91)  LDD1593  [2]
 LDCM0390  CL12 HEK-293T C127(1.16)  LDD1594  [2]
 LDCM0391  CL120 HEK-293T C127(1.06)  LDD1595  [2]
 LDCM0392  CL121 HEK-293T C127(1.03)  LDD1596  [2]
 LDCM0393  CL122 HEK-293T C127(1.09)  LDD1597  [2]
 LDCM0394  CL123 HEK-293T C127(0.93)  LDD1598  [2]
 LDCM0395  CL124 HEK-293T C127(1.03)  LDD1599  [2]
 LDCM0396  CL125 HEK-293T C127(1.00)  LDD1600  [2]
 LDCM0397  CL126 HEK-293T C127(1.04)  LDD1601  [2]
 LDCM0398  CL127 HEK-293T C127(0.89)  LDD1602  [2]
 LDCM0399  CL128 HEK-293T C127(0.93)  LDD1603  [2]
 LDCM0400  CL13 HEK-293T C127(0.98)  LDD1604  [2]
 LDCM0401  CL14 HEK-293T C127(1.18)  LDD1605  [2]
 LDCM0402  CL15 HEK-293T C127(1.15)  LDD1606  [2]
 LDCM0403  CL16 HEK-293T C127(1.05)  LDD1607  [2]
 LDCM0405  CL18 HEK-293T C127(1.05)  LDD1609  [2]
 LDCM0406  CL19 HEK-293T C127(1.21)  LDD1610  [2]
 LDCM0407  CL2 HEK-293T C127(1.03)  LDD1611  [2]
 LDCM0408  CL20 HEK-293T C127(1.31)  LDD1612  [2]
 LDCM0409  CL21 HEK-293T C127(1.04)  LDD1613  [2]
 LDCM0410  CL22 HEK-293T C127(1.09)  LDD1614  [2]
 LDCM0411  CL23 HEK-293T C127(1.31)  LDD1615  [2]
 LDCM0412  CL24 HEK-293T C127(1.27)  LDD1616  [2]
 LDCM0413  CL25 HEK-293T C127(0.93)  LDD1617  [2]
 LDCM0414  CL26 HEK-293T C127(0.88)  LDD1618  [2]
 LDCM0415  CL27 HEK-293T C127(1.03)  LDD1619  [2]
 LDCM0416  CL28 HEK-293T C127(0.77)  LDD1620  [2]
 LDCM0418  CL3 HEK-293T C127(1.00)  LDD1622  [2]
 LDCM0419  CL30 HEK-293T C127(0.89)  LDD1623  [2]
 LDCM0420  CL31 HEK-293T C127(0.97)  LDD1624  [2]
 LDCM0421  CL32 HEK-293T C127(0.99)  LDD1625  [2]
 LDCM0422  CL33 HEK-293T C127(1.03)  LDD1626  [2]
 LDCM0423  CL34 HEK-293T C127(0.97)  LDD1627  [2]
 LDCM0424  CL35 HEK-293T C127(0.95)  LDD1628  [2]
 LDCM0425  CL36 HEK-293T C127(1.17)  LDD1629  [2]
 LDCM0426  CL37 HEK-293T C127(0.96)  LDD1630  [2]
 LDCM0428  CL39 HEK-293T C127(0.98)  LDD1632  [2]
 LDCM0429  CL4 HEK-293T C127(0.98)  LDD1633  [2]
 LDCM0430  CL40 HEK-293T C127(0.93)  LDD1634  [2]
 LDCM0432  CL42 HEK-293T C127(0.95)  LDD1636  [2]
 LDCM0433  CL43 HEK-293T C127(0.89)  LDD1637  [2]
 LDCM0434  CL44 HEK-293T C127(0.96)  LDD1638  [2]
 LDCM0435  CL45 HEK-293T C127(0.98)  LDD1639  [2]
 LDCM0436  CL46 HEK-293T C127(1.00)  LDD1640  [2]
 LDCM0437  CL47 HEK-293T C127(0.85)  LDD1641  [2]
 LDCM0438  CL48 HEK-293T C127(1.16)  LDD1642  [2]
 LDCM0439  CL49 HEK-293T C127(0.96)  LDD1643  [2]
 LDCM0441  CL50 HEK-293T C127(0.84)  LDD1645  [2]
 LDCM0443  CL52 HEK-293T C127(0.90)  LDD1646  [2]
 LDCM0445  CL54 HEK-293T C127(0.82)  LDD1648  [2]
 LDCM0446  CL55 HEK-293T C127(0.98)  LDD1649  [2]
 LDCM0447  CL56 HEK-293T C127(1.12)  LDD1650  [2]
 LDCM0448  CL57 HEK-293T C127(1.03)  LDD1651  [2]
 LDCM0449  CL58 HEK-293T C127(0.92)  LDD1652  [2]
 LDCM0450  CL59 HEK-293T C127(0.86)  LDD1653  [2]
 LDCM0451  CL6 HEK-293T C127(0.97)  LDD1654  [2]
 LDCM0452  CL60 HEK-293T C127(1.12)  LDD1655  [2]
 LDCM0453  CL61 HEK-293T C127(0.97)  LDD1656  [2]
 LDCM0454  CL62 HEK-293T C127(1.06)  LDD1657  [2]
 LDCM0455  CL63 HEK-293T C127(1.08)  LDD1658  [2]
 LDCM0456  CL64 HEK-293T C127(0.87)  LDD1659  [2]
 LDCM0458  CL66 HEK-293T C127(0.89)  LDD1661  [2]
 LDCM0459  CL67 HEK-293T C127(1.09)  LDD1662  [2]
 LDCM0460  CL68 HEK-293T C127(0.96)  LDD1663  [2]
 LDCM0461  CL69 HEK-293T C127(1.11)  LDD1664  [2]
 LDCM0462  CL7 HEK-293T C127(1.15)  LDD1665  [2]
 LDCM0463  CL70 HEK-293T C127(1.19)  LDD1666  [2]
 LDCM0464  CL71 HEK-293T C127(1.12)  LDD1667  [2]
 LDCM0465  CL72 HEK-293T C127(1.18)  LDD1668  [2]
 LDCM0466  CL73 HEK-293T C127(1.00)  LDD1669  [2]
 LDCM0467  CL74 HEK-293T C127(1.06)  LDD1670  [2]
 LDCM0469  CL76 HEK-293T C127(0.97)  LDD1672  [2]
 LDCM0471  CL78 HEK-293T C127(1.01)  LDD1674  [2]
 LDCM0472  CL79 HEK-293T C127(1.17)  LDD1675  [2]
 LDCM0473  CL8 HEK-293T C127(1.02)  LDD1676  [2]
 LDCM0474  CL80 HEK-293T C127(0.92)  LDD1677  [2]
 LDCM0475  CL81 HEK-293T C127(1.11)  LDD1678  [2]
 LDCM0476  CL82 HEK-293T C127(1.06)  LDD1679  [2]
 LDCM0477  CL83 HEK-293T C127(1.12)  LDD1680  [2]
 LDCM0478  CL84 HEK-293T C127(1.19)  LDD1681  [2]
 LDCM0479  CL85 HEK-293T C127(0.99)  LDD1682  [2]
 LDCM0480  CL86 HEK-293T C127(1.14)  LDD1683  [2]
 LDCM0481  CL87 HEK-293T C127(1.03)  LDD1684  [2]
 LDCM0482  CL88 HEK-293T C127(1.06)  LDD1685  [2]
 LDCM0484  CL9 HEK-293T C127(1.09)  LDD1687  [2]
 LDCM0485  CL90 HEK-293T C127(0.91)  LDD1688  [2]
 LDCM0486  CL91 HEK-293T C127(1.14)  LDD1689  [2]
 LDCM0487  CL92 HEK-293T C127(1.03)  LDD1690  [2]
 LDCM0488  CL93 HEK-293T C127(0.95)  LDD1691  [2]
 LDCM0489  CL94 HEK-293T C127(0.93)  LDD1692  [2]
 LDCM0490  CL95 HEK-293T C127(0.54)  LDD1693  [2]
 LDCM0491  CL96 HEK-293T C127(1.08)  LDD1694  [2]
 LDCM0492  CL97 HEK-293T C127(1.02)  LDD1695  [2]
 LDCM0493  CL98 HEK-293T C127(1.08)  LDD1696  [2]
 LDCM0494  CL99 HEK-293T C127(0.90)  LDD1697  [2]
 LDCM0495  E2913 HEK-293T C127(0.97)  LDD1698  [2]
 LDCM0625  F8 Ramos C53(1.15)  LDD2187  [9]
 LDCM0572  Fragment10 Ramos C53(0.84)  LDD2189  [9]
 LDCM0573  Fragment11 Ramos C53(1.39)  LDD2190  [9]
 LDCM0574  Fragment12 Ramos C53(0.65)  LDD2191  [9]
 LDCM0575  Fragment13 Ramos C53(0.70)  LDD2192  [9]
 LDCM0576  Fragment14 Ramos C53(0.66)  LDD2193  [9]
 LDCM0579  Fragment20 Ramos C53(0.52)  LDD2194  [9]
 LDCM0580  Fragment21 Ramos C53(0.98)  LDD2195  [9]
 LDCM0582  Fragment23 Ramos C53(0.82)  LDD2196  [9]
 LDCM0578  Fragment27 Ramos C53(0.79)  LDD2197  [9]
 LDCM0586  Fragment28 Ramos C53(0.76)  LDD2198  [9]
 LDCM0588  Fragment30 Ramos C53(0.95)  LDD2199  [9]
 LDCM0589  Fragment31 Ramos C53(0.69)  LDD2200  [9]
 LDCM0590  Fragment32 Ramos C53(1.09)  LDD2201  [9]
 LDCM0468  Fragment33 HEK-293T C127(1.01)  LDD1671  [2]
 LDCM0596  Fragment38 Ramos C53(0.80)  LDD2203  [9]
 LDCM0566  Fragment4 Ramos C53(0.92)  LDD2184  [9]
 LDCM0427  Fragment51 HEK-293T C127(0.84)  LDD1631  [2]
 LDCM0610  Fragment52 Ramos C53(1.40)  LDD2204  [9]
 LDCM0614  Fragment56 Ramos C53(0.89)  LDD2205  [9]
 LDCM0569  Fragment7 Ramos C53(0.96)  LDD2186  [9]
 LDCM0571  Fragment9 Ramos C53(0.70)  LDD2188  [9]
 LDCM0022  KB02 HEK-293T C127(0.91)  LDD1492  [2]
 LDCM0023  KB03 HEK-293T C127(0.96)  LDD1497  [2]
 LDCM0024  KB05 HEK-293T C127(0.87)  LDD1502  [2]
 LDCM0131  RA190 MM1.R C53(1.24)  LDD0304  [10]

The Interaction Atlas With This Target

The Protein(s) Related To This Target

Transporter and channel
Click To Hide/Show 1 Protein(s) Interacting with This Target
Protein name Family Uniprot ID
Hepatic sodium/bile acid cotransporter (SLC10A1) Bile acid:sodium symporter (BASS) family Q14973

References

1 A chemical probe unravels the reactive proteome of health-associated catechols. Chem Sci. 2023 Jul 22;14(32):8635-8643. doi: 10.1039/d3sc00888f. eCollection 2023 Aug 16.
Mass spectrometry data entry: PXD043348
2 Accelerating multiplexed profiling of protein-ligand interactions: High-throughput plate-based reactive cysteine profiling with minimal input. Cell Chem Biol. 2024 Mar 21;31(3):565-576.e4. doi: 10.1016/j.chembiol.2023.11.015. Epub 2023 Dec 19.
Mass spectrometry data entry: PXD044402
3 Enhancing Cysteine Chemoproteomic Coverage through Systematic Assessment of Click Chemistry Product Fragmentation. Anal Chem. 2022 Mar 8;94(9):3800-3810. doi: 10.1021/acs.analchem.1c04402. Epub 2022 Feb 23.
Mass spectrometry data entry: PXD028853
4 Chemoproteomic Profiling by Cysteine Fluoroalkylation Reveals Myrocin G as an Inhibitor of the Nonhomologous End Joining DNA Repair Pathway. J Am Chem Soc. 2021 Dec 8;143(48):20332-20342. doi: 10.1021/jacs.1c09724. Epub 2021 Nov 24.
Mass spectrometry data entry: PXD029255
5 Ynamide Electrophile for the Profiling of Ligandable Carboxyl Residues in Live Cells and the Development of New Covalent Inhibitors. J Med Chem. 2022 Aug 11;65(15):10408-10418. doi: 10.1021/acs.jmedchem.2c00272. Epub 2022 Jul 26.
6 ACR-Based Probe for the Quantitative Profiling of Histidine Reactivity in the Human Proteome. J Am Chem Soc. 2023 Mar 8;145(9):5252-5260. doi: 10.1021/jacs.2c12653. Epub 2023 Feb 27.
7 N-Acryloylindole-alkyne (NAIA) enables imaging and profiling new ligandable cysteines and oxidized thiols by chemoproteomics. Nat Commun. 2023 Jun 15;14(1):3564. doi: 10.1038/s41467-023-39268-w.
Mass spectrometry data entry: PXD041264
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Mass spectrometry data entry: PXD041587
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Mass spectrometry data entry: PXD027578
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