data_Y7D
#

_chem_comp.id                                   Y7D
_chem_comp.name                                 "(2Z)-3-methylhept-2-en-1-yl trihydrogen diphosphate"
_chem_comp.type                                 non-polymer
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C8 H18 O7 P2"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2021-02-09
_chem_comp.pdbx_modified_date                   2021-12-17
_chem_comp.pdbx_ambiguous_flag                  N
_chem_comp.pdbx_release_status                  REL
_chem_comp.pdbx_replaced_by                     ?
_chem_comp.pdbx_replaces                        ?
_chem_comp.formula_weight                       288.172
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    Y7D
_chem_comp.pdbx_model_coordinates_details       ?
_chem_comp.pdbx_model_coordinates_missing_flag  N
_chem_comp.pdbx_ideal_coordinates_details       Corina
_chem_comp.pdbx_ideal_coordinates_missing_flag  N
_chem_comp.pdbx_model_coordinates_db_code       7LNX
_chem_comp.pdbx_subcomponent_list               ?
_chem_comp.pdbx_processing_site                 RCSB
#   #
loop_
_chem_comp_atom.comp_id
_chem_comp_atom.atom_id
_chem_comp_atom.alt_atom_id
_chem_comp_atom.type_symbol
_chem_comp_atom.charge
_chem_comp_atom.pdbx_align
_chem_comp_atom.pdbx_aromatic_flag
_chem_comp_atom.pdbx_leaving_atom_flag
_chem_comp_atom.pdbx_stereo_config
_chem_comp_atom.model_Cartn_x
_chem_comp_atom.model_Cartn_y
_chem_comp_atom.model_Cartn_z
_chem_comp_atom.pdbx_model_Cartn_x_ideal
_chem_comp_atom.pdbx_model_Cartn_y_ideal
_chem_comp_atom.pdbx_model_Cartn_z_ideal
_chem_comp_atom.pdbx_component_atom_id
_chem_comp_atom.pdbx_component_comp_id
_chem_comp_atom.pdbx_ordinal
Y7D  C02  C1   C  0  1  N  N  N  -4.141   0.069  31.332  -3.674   1.658   0.201  C02  Y7D   1  
Y7D  C09  C2   C  0  1  N  N  N  -4.399  -1.325  33.347  -1.487   1.041  -0.692  C09  Y7D   2  
Y7D  O14  O1   O  0  1  N  N  N  -4.641  -2.542  36.215   0.486  -1.573  -0.506  O14  Y7D   3  
Y7D  C01  C3   C  0  1  N  N  N  -4.672   0.755  30.111  -4.565   2.509   1.068  C01  Y7D   4  
Y7D  C03  C4   C  0  1  N  N  N  -2.675   0.175  31.675  -4.241   0.457  -0.513  C03  Y7D   5  
Y7D  C04  C5   C  0  1  N  N  N  -2.321   1.631  31.946  -4.225  -0.749   0.428  C04  Y7D   6  
Y7D  C05  C6   C  0  1  N  N  N  -2.980   2.145  33.219  -4.800  -1.968  -0.297  C05  Y7D   7  
Y7D  C06  C7   C  0  1  N  N  N  -2.548   3.567  33.505  -4.785  -3.175   0.643  C06  Y7D   8  
Y7D  C08  C8   C  0  1  N  N  N  -4.958  -0.644  32.121  -2.408   1.964   0.063  C08  Y7D   9  
Y7D  O10  O2   O  0  1  N  N  N  -5.268  -2.376  33.760  -0.265   0.889   0.033  O10  Y7D  10  
Y7D  O12  O3   O  0  1  N  N  N  -5.867  -4.424  35.154   1.343   0.387  -1.847  O12  Y7D  11  
Y7D  O13  O4   O  0  1  N  N  N  -3.426  -4.063  34.582   2.208   0.135   0.511  O13  Y7D  12  
Y7D  O36  O5   O  0  1  N  N  N  -3.578  -6.382  35.614   4.484   1.070  -0.416  O36  Y7D  13  
Y7D  O39  O6   O  0  1  N  N  N  -2.785  -4.503  37.003   4.438  -0.280   1.840  O39  Y7D  14  
Y7D  O40  O7   O  0  1  N  N  N  -1.344  -5.384  35.190   3.999  -1.407  -0.376  O40  Y7D  15  
Y7D  P11  P1   P  0  1  N  N  N  -4.818  -3.355  34.954   0.952  -0.031  -0.482  P11  Y7D  16  
Y7D  P32  P2   P  0  1  N  N  N  -2.767  -5.106  35.618   3.787  -0.148   0.373  P32  Y7D  17  
Y7D  H1   H1   H  0  1  N  N  N  -3.409  -1.742  33.112  -1.964   0.067  -0.809  H1   Y7D  18  
Y7D  H2   H2   H  0  1  N  N  N  -4.304  -0.590  34.160  -1.276   1.462  -1.675  H2   Y7D  19  
Y7D  H3   H3   H  0  1  N  N  N  -5.229  -2.867  36.887   0.215  -1.915   0.357  H3   Y7D  20  
Y7D  H4   H4   H  0  1  N  N  N  -5.752   0.567  30.025  -4.554   2.125   2.088  H4   Y7D  21  
Y7D  H5   H5   H  0  1  N  N  N  -4.494   1.837  30.192  -4.203   3.537   1.062  H5   Y7D  22  
Y7D  H6   H6   H  0  1  N  N  N  -4.160   0.365  29.219  -5.584   2.481   0.680  H6   Y7D  23  
Y7D  H7   H7   H  0  1  N  N  N  -2.464  -0.427  32.571  -5.266   0.667  -0.818  H7   Y7D  24  
Y7D  H8   H8   H  0  1  N  N  N  -2.074  -0.198  30.833  -3.637   0.240  -1.394  H8   Y7D  25  
Y7D  H9   H9   H  0  1  N  N  N  -1.229   1.719  32.050  -3.200  -0.959   0.733  H9   Y7D  26  
Y7D  H10  H10  H  0  1  N  N  N  -2.659   2.244  31.097  -4.829  -0.532   1.308  H10  Y7D  27  
Y7D  H11  H11  H  0  1  N  N  N  -4.073   2.117  33.097  -5.826  -1.759  -0.602  H11  Y7D  28  
Y7D  H12  H12  H  0  1  N  N  N  -2.688   1.502  34.062  -4.196  -2.186  -1.178  H12  Y7D  29  
Y7D  H13  H13  H  0  1  N  N  N  -3.034   3.920  34.427  -5.195  -4.043   0.127  H13  Y7D  30  
Y7D  H14  H14  H  0  1  N  N  N  -1.456   3.600  33.630  -3.760  -3.384   0.948  H14  Y7D  31  
Y7D  H15  H15  H  0  1  N  N  N  -2.840   4.215  32.665  -5.389  -2.957   1.524  H15  Y7D  32  
Y7D  H16  H16  H  0  1  N  N  N  -6.008  -0.730  31.881  -2.024   2.878   0.491  H16  Y7D  33  
Y7D  H17  H17  H  0  1  N  N  N  -3.027  -7.107  35.342   4.385   1.928   0.019  H17  Y7D  34  
Y7D  H18  H18  H  0  1  N  N  N  -1.895  -4.421  37.325   5.390  -0.451   1.834  H18  Y7D  35  
#   #
loop_
_chem_comp_bond.comp_id
_chem_comp_bond.atom_id_1
_chem_comp_bond.atom_id_2
_chem_comp_bond.value_order
_chem_comp_bond.pdbx_aromatic_flag
_chem_comp_bond.pdbx_stereo_config
_chem_comp_bond.pdbx_ordinal
Y7D  C01  C02  SING  N  N   1  
Y7D  C02  C03  SING  N  N   2  
Y7D  C02  C08  DOUB  N  Z   3  
Y7D  C03  C04  SING  N  N   4  
Y7D  C04  C05  SING  N  N   5  
Y7D  C08  C09  SING  N  N   6  
Y7D  C05  C06  SING  N  N   7  
Y7D  C09  O10  SING  N  N   8  
Y7D  O10  P11  SING  N  N   9  
Y7D  O13  P11  SING  N  N  10  
Y7D  O13  P32  SING  N  N  11  
Y7D  P11  O12  DOUB  N  N  12  
Y7D  P11  O14  SING  N  N  13  
Y7D  O40  P32  DOUB  N  N  14  
Y7D  O36  P32  SING  N  N  15  
Y7D  P32  O39  SING  N  N  16  
Y7D  C09  H1   SING  N  N  17  
Y7D  C09  H2   SING  N  N  18  
Y7D  O14  H3   SING  N  N  19  
Y7D  C01  H4   SING  N  N  20  
Y7D  C01  H5   SING  N  N  21  
Y7D  C01  H6   SING  N  N  22  
Y7D  C03  H7   SING  N  N  23  
Y7D  C03  H8   SING  N  N  24  
Y7D  C04  H9   SING  N  N  25  
Y7D  C04  H10  SING  N  N  26  
Y7D  C05  H11  SING  N  N  27  
Y7D  C05  H12  SING  N  N  28  
Y7D  C06  H13  SING  N  N  29  
Y7D  C06  H14  SING  N  N  30  
Y7D  C06  H15  SING  N  N  31  
Y7D  C08  H16  SING  N  N  32  
Y7D  O36  H17  SING  N  N  33  
Y7D  O39  H18  SING  N  N  34  
#   #
loop_
_pdbx_chem_comp_descriptor.comp_id
_pdbx_chem_comp_descriptor.type
_pdbx_chem_comp_descriptor.program
_pdbx_chem_comp_descriptor.program_version
_pdbx_chem_comp_descriptor.descriptor
Y7D  SMILES            ACDLabs               12.01  "O=P(O)(O)OP(O)(=O)OC\C=C(\C)CCCC"  
Y7D  InChI             InChI                 1.03   "InChI=1S/C8H18O7P2/c1-3-4-5-8(2)6-7-14-17(12,13)15-16(9,10)11/h6H,3-5,7H2,1-2H3,(H,12,13)(H2,9,10,11)/b8-6-"  
Y7D  InChIKey          InChI                 1.03   UIWSLTUOMNESGZ-VURMDHGXSA-N  
Y7D  SMILES_CANONICAL  CACTVS                3.385  "CCCCC(/C)=C\CO[P](O)(=O)O[P](O)(O)=O"  
Y7D  SMILES            CACTVS                3.385  "CCCCC(C)=CCO[P](O)(=O)O[P](O)(O)=O"  
Y7D  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "CCCC/C(=C\COP(=O)(O)OP(=O)(O)O)/C"  
Y7D  SMILES            "OpenEye OEToolkits"  2.0.7  "CCCCC(=CCOP(=O)(O)OP(=O)(O)O)C"  
#   #
loop_
_pdbx_chem_comp_identifier.comp_id
_pdbx_chem_comp_identifier.type
_pdbx_chem_comp_identifier.program
_pdbx_chem_comp_identifier.program_version
_pdbx_chem_comp_identifier.identifier
Y7D  "SYSTEMATIC NAME"  ACDLabs               12.01  "(2Z)-3-methylhept-2-en-1-yl trihydrogen diphosphate"  
Y7D  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.7  "[(~{Z})-3-methylhept-2-enyl] phosphono hydrogen phosphate"  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
Y7D  "Create component"  2021-02-09  RCSB  
Y7D  "Initial release"   2021-12-22  RCSB  
##
