data_GM2
#
_chem_comp.id GM2
_chem_comp.name
N-[(1S,2S)-2-HYDROXY-1-({[(2R,3R,4S,5S,6R)-3,4,5-TRIHYDROXY-6-(HYDROXYMETHYL)TETRAHYDRO-2H-PYRAN-2-YL]OXY}METHYL)OCTADECYL]OCTADECANAMIDE
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C43 H85 N O8"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2002-05-24
_chem_comp.pdbx_modified_date 2011-06-04
_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 744.137
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code GM2
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag N
_chem_comp.pdbx_ideal_coordinates_details ?
_chem_comp.pdbx_ideal_coordinates_missing_flag N
_chem_comp.pdbx_model_coordinates_db_code ?
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site EBI
#
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.pdbx_backbone_atom_flag
_chem_comp_atom.pdbx_n_terminal_atom_flag
_chem_comp_atom.pdbx_c_terminal_atom_flag
_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
GM2 C1 C1 C 0 1 N N R N N N 71.855 12.050 -6.631 0.731 -6.562 -0.358 C1 GM2 1
GM2 O1 O1 O 0 1 N N N N N N 72.130 11.213 -5.548 1.094 -5.181 -0.286 O1 GM2 2
GM2 C2 C2 C 0 1 N N R N N N 72.855 13.222 -6.692 0.849 -7.044 -1.805 C2 GM2 3
GM2 O5 O5 O 0 1 N N N N N N 71.945 11.259 -7.828 1.601 -7.324 0.476 O5 GM2 4
GM2 CB1 CB1 C 0 1 N N N N N N 71.420 11.612 -4.399 0.850 -4.759 1.057 CB1 GM2 5
GM2 O2 O2 O 0 1 N N N N N N 72.735 14.028 -5.525 -0.003 -6.258 -2.642 O2 GM2 6
GM2 C3 C3 C 0 1 N N S N N N 72.571 14.070 -7.937 0.423 -8.515 -1.878 C3 GM2 7
GM2 O3 O3 O 0 1 N N N N N N 73.543 15.101 -8.053 0.667 -9.024 -3.190 O3 GM2 8
GM2 C4 C4 C 0 1 N N S N N N 72.589 13.190 -9.195 1.243 -9.312 -0.857 C4 GM2 9
GM2 O4 O4 O 0 1 N N N N N N 72.213 13.964 -10.328 0.764 -10.657 -0.800 O4 GM2 10
GM2 C5 C5 C 0 1 N N R N N N 71.619 12.006 -9.024 1.098 -8.658 0.519 C5 GM2 11
GM2 C6 C6 C 0 1 N N N N N N 71.643 11.024 -10.190 1.887 -9.467 1.551 C6 GM2 12
GM2 O6 O6 O 0 1 N N N N N N 72.802 10.202 -10.167 1.653 -8.932 2.855 O6 GM2 13
GM2 CL6 CL6 C 0 1 N N N N N N 65.255 16.873 -1.690 -6.229 1.043 -0.185 CL6 GM2 14
GM2 CL5 CL5 C 0 1 N N N N N N 66.437 16.623 -2.637 -5.295 0.195 0.682 CL5 GM2 15
GM2 CL7 CL7 C 0 1 N N N N N N 64.240 17.845 -2.304 -7.514 1.341 0.590 CL7 GM2 16
GM2 CL4 CL4 C 0 1 N N N N N N 66.045 15.696 -3.796 -4.011 -0.103 -0.094 CL4 GM2 17
GM2 CL3 CL3 C 0 1 N N N N N N 66.581 14.281 -3.577 -3.077 -0.951 0.773 CL3 GM2 18
GM2 CL2 CL2 C 0 1 N N N N N N 67.354 13.794 -4.803 -1.792 -1.249 -0.002 CL2 GM2 19
GM2 CL1 CL1 C 0 1 N N N N N N 68.842 13.625 -4.478 -0.873 -2.084 0.852 CL1 GM2 20
GM2 CB2 CB2 C 0 1 N N S N N N 69.901 11.390 -4.572 1.220 -3.282 1.202 CB2 GM2 21
GM2 O O O 0 1 N N N N N N 69.618 14.576 -4.582 -1.212 -2.408 1.970 O GM2 22
GM2 N N N 0 1 N N N N N N 69.158 12.469 -3.880 0.326 -2.470 0.372 N GM2 23
GM2 CR1 CR1 C 0 1 N N S N N N 69.463 10.007 -4.041 2.666 -3.071 0.751 CR1 GM2 24
GM2 OR OR O 0 1 N N N N N N 69.911 9.824 -2.692 2.800 -3.463 -0.617 OR GM2 25
GM2 CR2 CR2 C 0 1 N N N N N N 67.936 9.804 -4.128 3.036 -1.594 0.896 CR2 GM2 26
GM2 CR3 CR3 C 0 1 N N N N N N 67.186 10.542 -3.007 4.518 -1.404 0.563 CR3 GM2 27
GM2 CR4 CR4 C 0 1 N N N N N N 66.978 9.636 -1.792 4.888 0.074 0.709 CR4 GM2 28
GM2 CR5 CR5 C 0 1 N N N N N N 67.394 10.341 -0.501 6.369 0.264 0.376 CR5 GM2 29
GM2 CR6 CR6 C 0 1 N N N N N N 66.184 10.623 0.391 6.739 1.741 0.522 CR6 GM2 30
GM2 CR7 CR7 C 0 1 N N N N N N 66.083 12.117 0.710 8.220 1.931 0.189 CR7 GM2 31
GM2 CR8 CR8 C 0 1 N N N N N N 65.302 12.351 1.992 8.590 3.408 0.334 CR8 GM2 32
GM2 CR9 CR9 C 0 1 N N N N N N 65.823 13.405 2.955 10.071 3.598 0.002 CR9 GM2 33
GM2 CRA CR10 C 0 1 N N N N N N 65.560 14.867 2.627 10.441 5.076 0.147 CRA GM2 34
GM2 CRB CR11 C 0 1 N N N N N N 64.909 15.710 3.713 11.923 5.266 -0.186 CRB GM2 35
GM2 CRC CR12 C 0 1 N N N N N N 65.117 17.211 3.647 12.293 6.743 -0.040 CRC GM2 36
GM2 CRD CR13 C 0 1 N N N N N N 65.579 17.910 4.919 13.774 6.933 -0.373 CRD GM2 37
GM2 CRE CR14 C 0 1 N N N N N N 67.078 18.102 5.099 14.144 8.411 -0.227 CRE GM2 38
GM2 CRF CR15 C 0 1 N N N N N N 67.562 19.416 5.695 15.625 8.601 -0.560 CRF GM2 39
GM2 CRG CR16 C 0 1 N N N N N N 68.315 20.355 4.764 15.995 10.078 -0.415 CRG GM2 40
GM2 CRH CR17 C 0 1 N N N N N N 69.148 21.451 5.394 17.476 10.268 -0.747 CRH GM2 41
GM2 CL8 CL8 C 0 1 N N N N N N 63.338 18.446 -1.239 -8.447 2.189 -0.277 CL8 GM2 42
GM2 CL9 CL9 C 0 1 N N N N N N 63.339 19.969 -1.103 -9.732 2.487 0.499 CL9 GM2 43
GM2 CLA CL10 C 0 1 N N N N N N 62.451 20.756 -2.055 -10.665 3.335 -0.368 CLA GM2 44
GM2 CLB CL11 C 0 1 N N N N N N 62.532 22.274 -2.006 -11.950 3.633 0.407 CLB GM2 45
GM2 CLC CL12 C 0 1 N N N N N N 61.339 23.024 -2.575 -12.884 4.481 -0.460 CLC GM2 46
GM2 CLD CL13 C 0 1 N N N N N N 61.505 24.490 -2.897 -14.168 4.779 0.315 CLD GM2 47
GM2 CLE CL14 C 0 1 N N N N N N 61.713 24.822 -4.345 -15.102 5.627 -0.551 CLE GM2 48
GM2 CLF CL15 C 0 1 N N N N N N 60.471 25.071 -5.156 -16.387 5.925 0.224 CLF GM2 49
GM2 CLG CL16 C 0 1 N N N N N N 60.673 25.422 -6.607 -17.320 6.773 -0.643 CLG GM2 50
GM2 CLH CL17 C 0 1 N N N N N N 60.209 24.420 -7.628 -18.605 7.071 0.132 CLH GM2 51
GM2 CLI CL18 C 0 1 N N N N N N 59.774 24.971 -8.949 -19.539 7.919 -0.735 CLI GM2 52
GM2 H1 H1 H 0 1 N N N N N N 70.820 12.453 -6.532 -0.297 -6.684 -0.017 H1 GM2 53
GM2 H2 H2 H 0 1 N N N N N N 73.892 12.817 -6.753 1.881 -6.946 -2.141 H2 GM2 54
GM2 HB11 1HB1 H 0 0 N N N N N N 71.650 12.667 -4.122 1.455 -5.354 1.741 HB11 GM2 55
GM2 HB12 2HB1 H 0 0 N N N N N N 71.806 11.106 -3.483 -0.205 -4.894 1.294 HB12 GM2 56
GM2 HA HA H 0 1 N N N N N N 73.351 14.750 -5.563 0.299 -5.343 -2.567 HA GM2 57
GM2 H3 H3 H 0 1 N N N N N N 71.562 14.534 -7.835 -0.637 -8.602 -1.643 H3 GM2 58
GM2 HB HB H 0 1 N N N N N N 73.367 15.627 -8.825 0.133 -8.495 -3.799 HB GM2 59
GM2 H4 H4 H 0 1 N N N N N N 73.621 12.796 -9.349 2.293 -9.311 -1.151 H4 GM2 60
GM2 HC HC H 0 1 N N N N N N 72.224 13.420 -11.106 0.874 -11.030 -1.686 HC GM2 61
GM2 H5 H5 H 0 1 N N N N N N 70.584 12.408 -8.920 0.045 -8.639 0.802 H5 GM2 62
GM2 H6C1 1H6C H 0 0 N N N N N N 71.540 11.552 -11.167 1.563 -10.507 1.522 H6C1 GM2 63
GM2 H6C2 2H6C H 0 0 N N N N N N 70.712 10.411 -10.223 2.951 -9.410 1.321 H6C2 GM2 64
GM2 H6 H6 H 0 1 N N N N N N 72.817 9.590 -10.894 2.167 -9.468 3.474 H6 GM2 65
GM2 HL61 1HL6 H 0 0 N N N N N N 65.601 17.222 -0.689 -6.473 0.497 -1.097 HL61 GM2 66
GM2 HL62 2HL6 H 0 0 N N N N N N 64.770 15.918 -1.381 -5.734 1.979 -0.444 HL62 GM2 67
GM2 HL51 1HL5 H 0 0 N N N N N N 67.325 16.234 -2.086 -5.051 0.741 1.593 HL51 GM2 68
GM2 HL52 2HL5 H 0 0 N N N N N N 66.870 17.580 -3.010 -5.790 -0.741 0.940 HL52 GM2 69
GM2 HL71 1HL7 H 0 0 N N N N N N 63.649 17.361 -3.116 -7.269 1.887 1.502 HL71 GM2 70
GM2 HL72 2HL7 H 0 0 N N N N N N 64.744 18.636 -2.908 -8.008 0.405 0.849 HL72 GM2 71
GM2 HL41 1HL4 H 0 0 N N N N N N 66.369 16.110 -4.780 -4.255 -0.649 -1.005 HL41 GM2 72
GM2 HL42 2HL4 H 0 0 N N N N N N 64.943 15.695 -3.966 -3.516 0.833 -0.352 HL42 GM2 73
GM2 HL31 1HL3 H 0 0 N N N N N N 65.768 13.572 -3.294 -2.833 -0.405 1.685 HL31 GM2 74
GM2 HL32 2HL3 H 0 0 N N N N N N 67.195 14.212 -2.649 -3.572 -1.887 1.032 HL32 GM2 75
GM2 HL21 1HL2 H 0 0 N N N N N N 67.197 14.463 -5.681 -2.037 -1.795 -0.914 HL21 GM2 76
GM2 HL22 2HL2 H 0 0 N N N N N N 66.915 12.859 -5.222 -1.298 -0.313 -0.261 HL22 GM2 77
GM2 HB2 HB2 H 0 1 N N N N N N 69.661 11.440 -5.660 1.118 -2.983 2.246 HB2 GM2 78
GM2 H H H 0 1 N N N N N N 68.876 12.326 -2.910 0.597 -2.211 -0.522 H GM2 79
GM2 HR1 HR1 H 0 1 N N N N N N 69.949 9.227 -4.673 3.332 -3.675 1.368 HR1 GM2 80
GM2 HR HR H 0 1 N N N N N N 69.642 8.974 -2.365 2.196 -2.906 -1.128 HR GM2 81
GM2 HR21 1HR2 H 0 0 N N N N N N 67.674 8.720 -4.143 2.431 -0.999 0.212 HR21 GM2 82
GM2 HR22 2HR2 H 0 0 N N N N N N 67.547 10.094 -5.132 2.850 -1.272 1.921 HR22 GM2 83
GM2 HR31 1HR3 H 0 0 N N N N N N 66.222 10.969 -3.370 5.123 -1.999 1.247 HR31 GM2 84
GM2 HR32 2HR3 H 0 0 N N N N N N 67.698 11.492 -2.727 4.704 -1.726 -0.461 HR32 GM2 85
GM2 HR41 1HR4 H 0 0 N N N N N N 67.503 8.660 -1.914 4.282 0.669 0.025 HR41 GM2 86
GM2 HR42 2HR4 H 0 0 N N N N N N 65.930 9.260 -1.735 4.701 0.396 1.733 HR42 GM2 87
GM2 HR51 1HR5 H 0 0 N N N N N N 67.974 11.270 -0.710 6.974 -0.332 1.060 HR51 GM2 88
GM2 HR52 2HR5 H 0 0 N N N N N N 68.180 9.768 0.044 6.555 -0.058 -0.648 HR52 GM2 89
GM2 HR61 1HR6 H 0 0 N N N N N N 66.200 10.003 1.317 6.134 2.336 -0.162 HR61 GM2 90
GM2 HR62 2HR6 H 0 0 N N N N N N 65.241 10.231 -0.056 6.552 2.063 1.546 HR62 GM2 91
GM2 HR71 1HR7 H 0 0 N N N N N N 65.652 12.691 -0.144 8.825 1.336 0.873 HR71 GM2 92
GM2 HR72 2HR7 H 0 0 N N N N N N 67.088 12.597 0.748 8.407 1.609 -0.836 HR72 GM2 93
GM2 HR81 1HR8 H 0 0 N N N N N N 65.187 11.383 2.534 7.985 4.004 -0.349 HR81 GM2 94
GM2 HR82 2HR8 H 0 0 N N N N N N 64.240 12.578 1.739 8.404 3.730 1.359 HR82 GM2 95
GM2 HR91 1HR9 H 0 0 N N N N N N 65.250 13.577 3.896 10.677 3.003 0.685 HR91 GM2 96
GM2 HR92 2HR9 H 0 0 N N N N N N 66.885 13.178 3.208 10.258 3.276 -1.023 HR92 GM2 97
GM2 "HC'" "HC'" H 0 1 N N N N N N 64.958 14.936 1.691 10.255 5.398 1.172 "HC'" GM2 98
GM2 HR11 1HR1 H 0 0 N N N N N N 66.509 15.351 2.298 9.836 5.671 -0.537 HR11 GM2 99
GM2 H0 H0 H 0 1 N N N N N N 65.229 15.336 4.713 12.528 4.671 0.498 H0 GM2 100
GM2 H7 H7 H 0 1 N N N N N N 63.817 15.489 3.748 12.109 4.944 -1.210 H7 GM2 101
GM2 H8 H8 H 0 1 N N N N N N 64.185 17.697 3.276 11.687 7.338 -0.724 H8 GM2 102
GM2 H9 H9 H 0 1 N N N N N N 65.822 17.450 2.817 12.106 7.065 0.984 H9 GM2 103
GM2 H10 H10 H 0 1 N N N N N N 65.164 17.378 5.807 14.379 6.338 0.311 H10 GM2 104
GM2 H11 H11 H 0 1 N N N N N N 65.065 18.895 5.009 13.960 6.611 -1.397 H11 GM2 105
GM2 H12 H12 H 0 1 N N N N N N 67.588 17.933 4.122 13.539 9.006 -0.911 H12 GM2 106
GM2 H13 H13 H 0 1 N N N N N N 67.486 17.256 5.700 13.957 8.733 0.797 H13 GM2 107
GM2 H14 H14 H 0 1 N N N N N N 68.182 19.210 6.599 16.230 8.005 0.124 H14 GM2 108
GM2 H15 H15 H 0 1 N N N N N N 66.702 19.957 6.155 15.812 8.279 -1.585 H15 GM2 109
GM2 H16 H16 H 0 1 N N N N N N 67.598 20.808 4.040 15.390 10.673 -1.098 H16 GM2 110
GM2 H17 H17 H 0 1 N N N N N N 68.956 19.755 4.077 15.809 10.400 0.610 H17 GM2 111
GM2 H18 H18 H 0 1 N N N N N N 69.865 20.998 6.118 18.082 9.673 -0.063 H18 GM2 112
GM2 H19 H19 H 0 1 N N N N N N 69.700 22.139 4.712 17.663 9.946 -1.772 H19 GM2 113
GM2 H20 H20 H 0 1 N N N N N N 68.507 22.051 6.081 17.740 11.321 -0.644 H20 GM2 114
GM2 HL81 1HL8 H 0 0 N N N N N N 63.572 17.985 -0.251 -8.691 1.643 -1.188 HL81 GM2 115
GM2 HL82 2HL8 H 0 0 N N N N N N 62.293 18.088 -1.392 -7.953 3.125 -0.535 HL82 GM2 116
GM2 HL91 1HL9 H 0 0 N N N N N N 64.386 20.346 -1.177 -9.488 3.033 1.410 HL91 GM2 117
GM2 HL92 2HL9 H 0 0 N N N N N N 63.091 20.247 -0.052 -10.226 1.551 0.757 HL92 GM2 118
GM2 HL11 1HL1 H 0 0 N N N N N N 61.391 20.440 -1.914 -10.910 2.789 -1.280 HL11 GM2 119
GM2 HL12 2HL1 H 0 0 N N N N N N 62.636 20.412 -3.099 -10.171 4.271 -0.627 HL12 GM2 120
GM2 H21 H21 H 0 1 N N N N N N 63.468 22.619 -2.504 -11.706 4.179 1.318 H21 GM2 121
GM2 H22 H22 H 0 1 N N N N N N 62.726 22.609 -0.960 -12.445 2.697 0.665 H22 GM2 122
GM2 H23 H23 H 0 1 N N N N N N 60.469 22.898 -1.889 -13.128 3.935 -1.371 H23 GM2 123
GM2 H24 H24 H 0 1 N N N N N N 60.973 22.491 -3.483 -12.389 5.417 -0.718 H24 GM2 124
GM2 H25 H25 H 0 1 N N N N N N 62.332 24.921 -2.286 -13.924 5.325 1.227 H25 GM2 125
GM2 H26 H26 H 0 1 N N N N N N 60.639 25.067 -2.496 -14.663 3.843 0.574 H26 GM2 126
GM2 H27 H27 H 0 1 N N N N N N 62.326 24.027 -4.829 -15.346 5.081 -1.463 H27 GM2 127
GM2 H28 H28 H 0 1 N N N N N N 62.403 25.693 -4.436 -14.608 6.563 -0.810 H28 GM2 128
GM2 H29 H29 H 0 1 N N N N N N 59.853 25.857 -4.663 -16.143 6.471 1.135 H29 GM2 129
GM2 H30 H30 H 0 1 N N N N N N 59.788 24.194 -5.074 -16.881 4.989 0.482 H30 GM2 130
GM2 H31 H31 H 0 1 N N N N N N 61.748 25.661 -6.784 -17.564 6.227 -1.555 H31 GM2 131
GM2 H32 H32 H 0 1 N N N N N N 60.203 26.411 -6.818 -16.826 7.709 -0.902 H32 GM2 132
GM2 H33 H33 H 0 1 N N N N N N 59.395 23.792 -7.196 -18.361 7.617 1.044 H33 GM2 133
GM2 H34 H34 H 0 1 N N N N N N 60.999 23.649 -7.784 -19.099 6.135 0.391 H34 GM2 134
GM2 H35 H35 H 0 1 N N N N N N 60.588 25.599 -9.381 -19.044 8.855 -0.993 H35 GM2 135
GM2 H36 H36 H 0 1 N N N N N N 59.430 24.228 -9.706 -19.783 7.373 -1.646 H36 GM2 136
GM2 H37 H37 H 0 1 N N N N N N 58.984 25.742 -8.793 -20.454 8.131 -0.182 H37 GM2 137
#
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
GM2 C1 O1 SING N N 1
GM2 C1 C2 SING N N 2
GM2 C1 O5 SING N N 3
GM2 C1 H1 SING N N 4
GM2 O1 CB1 SING N N 5
GM2 C2 O2 SING N N 6
GM2 C2 C3 SING N N 7
GM2 C2 H2 SING N N 8
GM2 O5 C5 SING N N 9
GM2 CB1 CB2 SING N N 10
GM2 CB1 HB11 SING N N 11
GM2 CB1 HB12 SING N N 12
GM2 O2 HA SING N N 13
GM2 C3 O3 SING N N 14
GM2 C3 C4 SING N N 15
GM2 C3 H3 SING N N 16
GM2 O3 HB SING N N 17
GM2 C4 O4 SING N N 18
GM2 C4 C5 SING N N 19
GM2 C4 H4 SING N N 20
GM2 O4 HC SING N N 21
GM2 C5 C6 SING N N 22
GM2 C5 H5 SING N N 23
GM2 C6 O6 SING N N 24
GM2 C6 H6C1 SING N N 25
GM2 C6 H6C2 SING N N 26
GM2 O6 H6 SING N N 27
GM2 CL6 CL5 SING N N 28
GM2 CL6 CL7 SING N N 29
GM2 CL6 HL61 SING N N 30
GM2 CL6 HL62 SING N N 31
GM2 CL5 CL4 SING N N 32
GM2 CL5 HL51 SING N N 33
GM2 CL5 HL52 SING N N 34
GM2 CL7 CL8 SING N N 35
GM2 CL7 HL71 SING N N 36
GM2 CL7 HL72 SING N N 37
GM2 CL4 CL3 SING N N 38
GM2 CL4 HL41 SING N N 39
GM2 CL4 HL42 SING N N 40
GM2 CL3 CL2 SING N N 41
GM2 CL3 HL31 SING N N 42
GM2 CL3 HL32 SING N N 43
GM2 CL2 CL1 SING N N 44
GM2 CL2 HL21 SING N N 45
GM2 CL2 HL22 SING N N 46
GM2 CL1 O DOUB N N 47
GM2 CL1 N SING N N 48
GM2 CB2 N SING N N 49
GM2 CB2 CR1 SING N N 50
GM2 CB2 HB2 SING N N 51
GM2 N H SING N N 52
GM2 CR1 OR SING N N 53
GM2 CR1 CR2 SING N N 54
GM2 CR1 HR1 SING N N 55
GM2 OR HR SING N N 56
GM2 CR2 CR3 SING N N 57
GM2 CR2 HR21 SING N N 58
GM2 CR2 HR22 SING N N 59
GM2 CR3 CR4 SING N N 60
GM2 CR3 HR31 SING N N 61
GM2 CR3 HR32 SING N N 62
GM2 CR4 CR5 SING N N 63
GM2 CR4 HR41 SING N N 64
GM2 CR4 HR42 SING N N 65
GM2 CR5 CR6 SING N N 66
GM2 CR5 HR51 SING N N 67
GM2 CR5 HR52 SING N N 68
GM2 CR6 CR7 SING N N 69
GM2 CR6 HR61 SING N N 70
GM2 CR6 HR62 SING N N 71
GM2 CR7 CR8 SING N N 72
GM2 CR7 HR71 SING N N 73
GM2 CR7 HR72 SING N N 74
GM2 CR8 CR9 SING N N 75
GM2 CR8 HR81 SING N N 76
GM2 CR8 HR82 SING N N 77
GM2 CR9 CRA SING N N 78
GM2 CR9 HR91 SING N N 79
GM2 CR9 HR92 SING N N 80
GM2 CRA CRB SING N N 81
GM2 CRA "HC'" SING N N 82
GM2 CRA HR11 SING N N 83
GM2 CRB CRC SING N N 84
GM2 CRB H0 SING N N 85
GM2 CRB H7 SING N N 86
GM2 CRC CRD SING N N 87
GM2 CRC H8 SING N N 88
GM2 CRC H9 SING N N 89
GM2 CRD CRE SING N N 90
GM2 CRD H10 SING N N 91
GM2 CRD H11 SING N N 92
GM2 CRE CRF SING N N 93
GM2 CRE H12 SING N N 94
GM2 CRE H13 SING N N 95
GM2 CRF CRG SING N N 96
GM2 CRF H14 SING N N 97
GM2 CRF H15 SING N N 98
GM2 CRG CRH SING N N 99
GM2 CRG H16 SING N N 100
GM2 CRG H17 SING N N 101
GM2 CRH H18 SING N N 102
GM2 CRH H19 SING N N 103
GM2 CRH H20 SING N N 104
GM2 CL8 CL9 SING N N 105
GM2 CL8 HL81 SING N N 106
GM2 CL8 HL82 SING N N 107
GM2 CL9 CLA SING N N 108
GM2 CL9 HL91 SING N N 109
GM2 CL9 HL92 SING N N 110
GM2 CLA CLB SING N N 111
GM2 CLA HL11 SING N N 112
GM2 CLA HL12 SING N N 113
GM2 CLB CLC SING N N 114
GM2 CLB H21 SING N N 115
GM2 CLB H22 SING N N 116
GM2 CLC CLD SING N N 117
GM2 CLC H23 SING N N 118
GM2 CLC H24 SING N N 119
GM2 CLD CLE SING N N 120
GM2 CLD H25 SING N N 121
GM2 CLD H26 SING N N 122
GM2 CLE CLF SING N N 123
GM2 CLE H27 SING N N 124
GM2 CLE H28 SING N N 125
GM2 CLF CLG SING N N 126
GM2 CLF H29 SING N N 127
GM2 CLF H30 SING N N 128
GM2 CLG CLH SING N N 129
GM2 CLG H31 SING N N 130
GM2 CLG H32 SING N N 131
GM2 CLH CLI SING N N 132
GM2 CLH H33 SING N N 133
GM2 CLH H34 SING N N 134
GM2 CLI H35 SING N N 135
GM2 CLI H36 SING N N 136
GM2 CLI H37 SING N N 137
#
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
GM2 SMILES ACDLabs 10.04 O=C(NC(COC1OC(C(O)C(O)C1O)CO)C(O)CCCCCCCCCCCCCCCC)CCCCCCCCCCCCCCCCC
GM2 SMILES_CANONICAL CACTVS 3.341 CCCCCCCCCCCCCCCCCC(=O)N[C@@H](CO[C@@H]1O[C@H](CO)[C@@H](O)[C@H](O)[C@H]1O)[C@@H](O)CCCCCCCCCCCCCCCC
GM2 SMILES CACTVS 3.341 CCCCCCCCCCCCCCCCCC(=O)N[CH](CO[CH]1O[CH](CO)[CH](O)[CH](O)[CH]1O)[CH](O)CCCCCCCCCCCCCCCC
GM2 SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 CCCCCCCCCCCCCCCCCC(=O)N[C@@H](CO[C@H]1[C@@H]([C@H]([C@@H]([C@H](O1)CO)O)O)O)[C@H](CCCCCCCCCCCCCCCC)O
GM2 SMILES "OpenEye OEToolkits" 1.5.0 CCCCCCCCCCCCCCCCCC(=O)NC(COC1C(C(C(C(O1)CO)O)O)O)C(CCCCCCCCCCCCCCCC)O
GM2 InChI InChI 1.03 InChI=1S/C43H85NO8/c1-3-5-7-9-11-13-15-17-19-21-23-25-27-29-31-33-39(47)44-36(35-51-43-42(50)41(49)40(48)38(34-45)52-43)37(46)32-30-28-26-24-22-20-18-16-14-12-10-8-6-4-2/h36-38,40-43,45-46,48-50H,3-35H2,1-2H3,(H,44,47)/t36-,37-,38+,40+,41-,42+,43+/m0/s1
GM2 InChIKey InChI 1.03 SYMIJCRAJBNLEL-YPQBUIQASA-N
#
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
GM2 "SYSTEMATIC NAME" ACDLabs 10.04 N-{(1S,2S)-1-[(beta-D-glucopyranosyloxy)methyl]-2-hydroxyoctadecyl}octadecanamide
GM2 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 N-[(2S,3S)-3-hydroxy-1-[(2R,3R,4S,5S,6R)-3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]oxy-nonadecan-2-yl]octadecanamide
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
GM2 'Create component' 2002-05-24 EBI
GM2 'Modify descriptor' 2011-06-04 RCSB
#
loop_
_software.name
_software.version
_software.description
rdkit 2023.03.3 'Core functionality.'
pdbeccdutils 0.8.4 'Wrapper to provide 2D templates and molecular fragments.'
#
loop_
_pdbe_chem_comp_atom_depiction.comp_id
_pdbe_chem_comp_atom_depiction.atom_id
_pdbe_chem_comp_atom_depiction.element
_pdbe_chem_comp_atom_depiction.model_Cartn_x
_pdbe_chem_comp_atom_depiction.model_Cartn_y
_pdbe_chem_comp_atom_depiction.pdbx_ordinal
GM2 C1 C 7.702 -10.268 1
GM2 O1 O 9.002 -9.518 2
GM2 C2 C 7.702 -11.768 3
GM2 O5 O 6.404 -9.518 4
GM2 CB1 C 9.002 -8.018 5
GM2 O2 O 9.002 -12.518 6
GM2 C3 C 6.404 -12.518 7
GM2 O3 O 6.404 -14.018 8
GM2 C4 C 5.104 -11.768 9
GM2 O4 O 3.805 -12.518 10
GM2 C5 C 5.104 -10.268 11
GM2 C6 C 3.805 -9.518 12
GM2 O6 O 3.805 -8.018 13
GM2 CL6 C 14.198 0.983 14
GM2 CL5 C 14.198 -0.517 15
GM2 CL7 C 15.497 1.732 16
GM2 CL4 C 12.899 -1.268 17
GM2 CL3 C 12.899 -2.768 18
GM2 CL2 C 11.600 -3.518 19
GM2 CL1 C 11.600 -5.018 20
GM2 CB2 C 10.301 -7.268 21
GM2 O O 12.899 -5.768 22
GM2 N N 10.301 -5.768 23
GM2 CR1 C 11.600 -8.018 24
GM2 OR O 11.600 -9.518 25
GM2 CR2 C 12.899 -7.268 26
GM2 CR3 C 14.198 -8.018 27
GM2 CR4 C 15.497 -7.268 28
GM2 CR5 C 16.796 -8.018 29
GM2 CR6 C 18.095 -7.268 30
GM2 CR7 C 19.394 -8.018 31
GM2 CR8 C 20.693 -7.268 32
GM2 CR9 C 21.992 -8.018 33
GM2 CRA C 23.291 -7.268 34
GM2 CRB C 24.590 -8.018 35
GM2 CRC C 25.889 -7.268 36
GM2 CRD C 27.188 -8.018 37
GM2 CRE C 28.487 -7.268 38
GM2 CRF C 29.786 -8.018 39
GM2 CRG C 31.085 -7.268 40
GM2 CRH C 32.384 -8.018 41
GM2 CL8 C 15.497 3.232 42
GM2 CL9 C 16.796 3.982 43
GM2 CLA C 16.796 5.482 44
GM2 CLB C 18.095 6.232 45
GM2 CLC C 18.095 7.732 46
GM2 CLD C 19.394 8.482 47
GM2 CLE C 19.394 9.982 48
GM2 CLF C 20.693 10.732 49
GM2 CLG C 20.693 12.232 50
GM2 CLH C 21.992 12.982 51
GM2 CLI C 21.992 14.482 52
#
loop_
_pdbe_chem_comp_bond_depiction.comp_id
_pdbe_chem_comp_bond_depiction.atom_id_1
_pdbe_chem_comp_bond_depiction.atom_id_2
_pdbe_chem_comp_bond_depiction.value_order
_pdbe_chem_comp_bond_depiction.bond_dir
_pdbe_chem_comp_bond_depiction.pdbx_ordinal
GM2 C1 O1 SINGLE BEGINWEDGE 1
GM2 C1 C2 SINGLE NONE 2
GM2 C1 O5 SINGLE NONE 3
GM2 O1 CB1 SINGLE NONE 4
GM2 C2 O2 SINGLE BEGINDASH 5
GM2 C2 C3 SINGLE NONE 6
GM2 O5 C5 SINGLE NONE 7
GM2 CB2 CB1 SINGLE BEGINDASH 8
GM2 C3 O3 SINGLE BEGINWEDGE 9
GM2 C3 C4 SINGLE NONE 10
GM2 C4 O4 SINGLE BEGINDASH 11
GM2 C4 C5 SINGLE NONE 12
GM2 C5 C6 SINGLE BEGINWEDGE 13
GM2 C6 O6 SINGLE NONE 14
GM2 CL6 CL5 SINGLE NONE 15
GM2 CL6 CL7 SINGLE NONE 16
GM2 CL5 CL4 SINGLE NONE 17
GM2 CL7 CL8 SINGLE NONE 18
GM2 CL4 CL3 SINGLE NONE 19
GM2 CL3 CL2 SINGLE NONE 20
GM2 CL2 CL1 SINGLE NONE 21
GM2 CL1 O DOUBLE NONE 22
GM2 CL1 N SINGLE NONE 23
GM2 CB2 N SINGLE NONE 24
GM2 CB2 CR1 SINGLE NONE 25
GM2 CR1 OR SINGLE BEGINDASH 26
GM2 CR1 CR2 SINGLE NONE 27
GM2 CR2 CR3 SINGLE NONE 28
GM2 CR3 CR4 SINGLE NONE 29
GM2 CR4 CR5 SINGLE NONE 30
GM2 CR5 CR6 SINGLE NONE 31
GM2 CR6 CR7 SINGLE NONE 32
GM2 CR7 CR8 SINGLE NONE 33
GM2 CR8 CR9 SINGLE NONE 34
GM2 CR9 CRA SINGLE NONE 35
GM2 CRA CRB SINGLE NONE 36
GM2 CRB CRC SINGLE NONE 37
GM2 CRC CRD SINGLE NONE 38
GM2 CRD CRE SINGLE NONE 39
GM2 CRE CRF SINGLE NONE 40
GM2 CRF CRG SINGLE NONE 41
GM2 CRG CRH SINGLE NONE 42
GM2 CL8 CL9 SINGLE NONE 43
GM2 CL9 CLA SINGLE NONE 44
GM2 CLA CLB SINGLE NONE 45
GM2 CLB CLC SINGLE NONE 46
GM2 CLC CLD SINGLE NONE 47
GM2 CLD CLE SINGLE NONE 48
GM2 CLE CLF SINGLE NONE 49
GM2 CLF CLG SINGLE NONE 50
GM2 CLG CLH SINGLE NONE 51
GM2 CLH CLI SINGLE NONE 52
#
loop_
_pdbe_chem_comp_substructure.comp_id
_pdbe_chem_comp_substructure.substructure_name
_pdbe_chem_comp_substructure.id
_pdbe_chem_comp_substructure.substructure_type
_pdbe_chem_comp_substructure.substructure_smiles
_pdbe_chem_comp_substructure.substructure_inchis
_pdbe_chem_comp_substructure.substructure_inchikeys
GM2 MurckoScaffold S1 scaffold C1CCOCC1 InChI=1S/C5H10O/c1-2-4-6-5-3-1/h1-5H2 DHXVGJBLRPWPCS-UHFFFAOYSA-N
GM2 amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
GM2 pyranose F2 fragment OC1CCCCO1 InChI=1S/C5H10O2/c6-5-3-1-2-4-7-5/h5-6H,1-4H2 CELWCAITJAEQNL-UHFFFAOYSA-N
#
loop_
_pdbe_chem_comp_substructure_mapping.comp_id
_pdbe_chem_comp_substructure_mapping.atom_id
_pdbe_chem_comp_substructure_mapping.substructure_id
_pdbe_chem_comp_substructure_mapping.substructure_ordinal
GM2 C1 S1 1
GM2 C2 S1 1
GM2 O5 S1 1
GM2 C3 S1 1
GM2 C4 S1 1
GM2 C5 S1 1
GM2 N F1 1
GM2 CL1 F1 1
GM2 O F1 1
GM2 CL2 F1 1
GM2 C4 F2 1
GM2 C5 F2 1
GM2 O5 F2 1
GM2 C1 F2 1
GM2 C2 F2 1
GM2 C3 F2 1
GM2 O1 F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id GM2
_pdbe_chem_comp_rdkit_properties.exactmw 743.628
_pdbe_chem_comp_rdkit_properties.amw 744.152
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 9
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 6
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 44
_pdbe_chem_comp_rdkit_properties.NumHBD 6
_pdbe_chem_comp_rdkit_properties.NumHBA 8
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 52
_pdbe_chem_comp_rdkit_properties.NumAtoms 137
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 9
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.977
_pdbe_chem_comp_rdkit_properties.NumRings 1
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 1
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 7
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 438.885
_pdbe_chem_comp_rdkit_properties.tpsa 148.710
_pdbe_chem_comp_rdkit_properties.CrippenClogP 8.782
_pdbe_chem_comp_rdkit_properties.CrippenMR 212.132
_pdbe_chem_comp_rdkit_properties.chi0v 25.213
_pdbe_chem_comp_rdkit_properties.chi1v 12.488
_pdbe_chem_comp_rdkit_properties.chi2v 3.793
_pdbe_chem_comp_rdkit_properties.chi3v 3.793
_pdbe_chem_comp_rdkit_properties.chi4v 1.976
_pdbe_chem_comp_rdkit_properties.chi0n 110.213
_pdbe_chem_comp_rdkit_properties.chi1n 54.477
_pdbe_chem_comp_rdkit_properties.chi2n 3.793
_pdbe_chem_comp_rdkit_properties.chi3n 3.793
_pdbe_chem_comp_rdkit_properties.chi4n 1.976
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.810
_pdbe_chem_comp_rdkit_properties.kappa1 6.952
_pdbe_chem_comp_rdkit_properties.kappa2 34.664
_pdbe_chem_comp_rdkit_properties.kappa3 25.304
_pdbe_chem_comp_rdkit_properties.Phi 4.634
#
loop_
_pdbe_chem_comp_external_mappings.comp_id
_pdbe_chem_comp_external_mappings.source
_pdbe_chem_comp_external_mappings.resource
_pdbe_chem_comp_external_mappings.resource_id
GM2 UniChem PDBe GM2
GM2 UniChem ChEBI 185427
GM2 UniChem ZINC ZINC000058631724
GM2 UniChem HMDB HMDB0000770
GM2 UniChem PubChem 445946
#