data_HGD
#
_chem_comp.id HGD
_chem_comp.name "mercury bis(L-gamma-glutamyl-3-sulfido-L-alanylglycine)"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C20 H32 Hg N6 O12 S2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms "S-Mercury glutathione"
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2013-10-31
_chem_comp.pdbx_modified_date 2020-06-17
_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 813.221
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code HGD
_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 4MRV
_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.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
HGD N1 N1 N 0 1 N N N N N N 22.984 36.469 77.603 0.067 -2.805 -4.250 N1 HGD 1
HGD CA1 CA1 C 0 1 N N S N N N 24.406 36.286 77.648 0.372 -3.251 -2.885 CA1 HGD 2
HGD C1 C1 C 0 1 N N N N N N 25.065 37.144 76.613 0.562 -4.746 -2.875 C1 HGD 3
HGD OE1 OE1 O 0 1 N N N N N N 24.375 37.783 75.763 0.116 -5.418 -3.774 OE1 HGD 4
HGD OE2 OE2 O 0 1 N N N N N N 26.328 37.202 76.602 1.227 -5.332 -1.867 OE2 HGD 5
HGD CB1 CB1 C 0 1 N N N N N N 24.769 34.812 77.360 -0.784 -2.878 -1.955 CB1 HGD 6
HGD CG1 CG1 C 0 1 N N N N N N 24.284 33.801 78.414 -0.897 -1.354 -1.868 CG1 HGD 7
HGD CD1 CD1 C 0 1 N N N N N N 25.211 32.558 78.372 -2.036 -0.987 -0.953 CD1 HGD 8
HGD O1 O1 O 0 1 N N N N N N 26.408 32.729 78.506 -2.693 -1.857 -0.422 O1 HGD 9
HGD N2 N2 N 0 1 N N N N N N 24.661 31.228 78.168 -2.325 0.310 -0.723 N2 HGD 10
HGD CA2 CA2 C 0 1 N N R N N N 25.519 30.045 78.101 -3.433 0.667 0.167 CA2 HGD 11
HGD C2 C2 C 0 1 N N N N N N 26.343 29.781 79.369 -4.723 0.667 -0.612 C2 HGD 12
HGD O2 O2 O 0 1 N N N N N N 27.429 30.333 79.518 -4.718 0.395 -1.794 O2 HGD 13
HGD CB2 CB2 C 0 1 N N N N N N 26.423 30.196 76.891 -3.189 2.060 0.750 CB2 HGD 14
HGD SG2 SG2 S 0 1 N N N N N N 25.327 30.670 75.583 -1.636 2.060 1.687 SG2 HGD 15
HGD N3 N3 N 0 1 N N N N N N 25.824 28.865 80.361 -5.882 0.969 0.005 N3 HGD 16
HGD CA3 CA3 C 0 1 N N N N N N 24.547 28.228 80.126 -7.136 0.969 -0.752 CA3 HGD 17
HGD C3 C3 C 0 1 N N N N N N 23.503 28.715 81.123 -8.276 1.337 0.163 C3 HGD 18
HGD OE3 OE3 O 0 1 N N N N N N 22.564 29.462 80.736 -8.062 1.575 1.328 OE3 HGD 19
HGD OE4 OE4 O 0 1 N N N N N N 23.595 28.352 82.336 -9.528 1.400 -0.316 OE4 HGD 20
HGD N4 N4 N 0 1 N N N N N N 24.726 26.205 70.757 5.882 0.969 -0.005 N4 HGD 21
HGD CA4 CA4 C 0 1 N N N N N N 25.264 26.843 69.565 7.136 0.969 0.752 CA4 HGD 22
HGD C4 C4 C 0 1 N N N N N N 24.120 27.298 68.639 8.276 1.337 -0.163 C4 HGD 23
HGD OE5 OE5 O 0 1 N N N N N N 24.351 28.106 67.698 8.062 1.575 -1.328 OE5 HGD 24
HGD OE6 OE6 O 0 1 N N N N N N 22.956 26.856 68.828 9.528 1.400 0.316 OE6 HGD 25
HGD C5 C5 C 0 1 N N N N N N 25.599 25.916 71.889 4.723 0.667 0.612 C5 HGD 26
HGD O5 O5 O 0 1 N N N N N N 26.784 26.206 71.835 4.718 0.395 1.794 O5 HGD 27
HGD CA5 CA5 C 0 1 N N R N N N 25.020 25.236 73.131 3.433 0.667 -0.167 CA5 HGD 28
HGD N5 N5 N 0 1 N N N N N N 24.189 24.121 72.761 2.325 0.310 0.723 N5 HGD 29
HGD CB5 CB5 C 0 1 N N N N N N 26.054 24.903 74.217 3.189 2.060 -0.750 CB5 HGD 30
HGD SG5 SG5 S 0 1 N N N N N N 26.629 26.400 74.986 1.636 2.060 -1.687 SG5 HGD 31
HGD CA6 CA6 C 0 1 N N S N N N 24.295 19.237 72.115 -0.372 -3.251 2.885 CA6 HGD 32
HGD C6 C6 C 0 1 N N N N N N 24.847 18.908 73.525 -0.562 -4.746 2.875 C6 HGD 33
HGD OE7 OE7 O 0 1 N N N N N N 24.125 18.312 74.376 -0.116 -5.418 3.774 OE7 HGD 34
HGD OE8 OE8 O 0 1 N N N N N N 26.023 19.255 73.816 -1.227 -5.332 1.867 OE8 HGD 35
HGD N6 N6 N 0 1 N N N N N N 22.844 19.361 72.163 -0.067 -2.805 4.250 N6 HGD 36
HGD CB6 CB6 C 0 1 N N N N N N 24.961 20.549 71.583 0.784 -2.878 1.955 CB6 HGD 37
HGD CG6 CG6 C 0 1 N N N N N N 24.007 21.769 71.687 0.897 -1.354 1.868 CG6 HGD 38
HGD CD6 CD6 C 0 1 N N N N N N 24.830 23.001 72.123 2.036 -0.987 0.953 CD6 HGD 39
HGD O6 O6 O 0 1 N N N N N N 26.026 22.991 71.918 2.693 -1.857 0.422 O6 HGD 40
HGD HG1 HG1 HG 0 0 N N N N N N 24.730 28.284 74.351 -0.000 2.060 0.000 HG1 HGD 41
HGD H1 H1 H 0 1 N N N N N N 22.551 35.893 78.297 0.842 -2.982 -4.871 H1 HGD 42
HGD H2 H2 H 0 1 N N N N N N 22.766 37.428 77.783 -0.777 -3.241 -4.593 H2 HGD 43
HGD H4 H4 H 0 1 N N N N N N 24.792 36.556 78.642 1.286 -2.767 -2.540 H4 HGD 44
HGD H5 H5 H 0 1 N N N N N N 26.613 37.768 75.894 1.324 -6.293 -1.904 H5 HGD 45
HGD H6 H6 H 0 1 N N N N N N 24.325 34.535 76.393 -1.714 -3.289 -2.349 H6 HGD 46
HGD H7 H7 H 0 1 N N N N N N 25.865 34.737 77.295 -0.598 -3.286 -0.962 H7 HGD 47
HGD H8 H8 H 0 1 N N N N N N 24.324 34.259 79.413 0.032 -0.943 -1.474 H8 HGD 48
HGD H9 H9 H 0 1 N N N N N N 23.250 33.500 78.190 -1.083 -0.946 -2.861 H9 HGD 49
HGD H10 H10 H 0 1 N N N N N N 23.672 31.119 78.071 -1.799 1.006 -1.148 H10 HGD 50
HGD H11 H11 H 0 1 N N N N N N 24.881 29.164 77.933 -3.497 -0.060 0.976 H11 HGD 51
HGD H12 H12 H 0 1 N N N N N N 27.181 30.974 77.065 -3.124 2.787 -0.060 H12 HGD 52
HGD H13 H13 H 0 1 N N N N N N 26.922 29.244 76.656 -4.013 2.326 1.412 H13 HGD 53
HGD H14 H14 H 0 1 N N N N N N 26.340 28.675 81.196 -5.886 1.187 0.950 H14 HGD 54
HGD H15 H15 H 0 1 N N N N N N 24.209 28.465 79.106 -7.072 1.696 -1.562 H15 HGD 55
HGD H16 H16 H 0 1 N N N N N N 24.663 27.139 80.230 -7.310 -0.023 -1.168 H16 HGD 56
HGD H17 H17 H 0 1 N N N N N N 22.878 28.727 82.834 -10.226 1.640 0.309 H17 HGD 57
HGD H18 H18 H 0 1 N N N N N N 23.756 25.964 70.800 5.886 1.187 -0.950 H18 HGD 58
HGD H19 H19 H 0 1 N N N N N N 25.862 27.718 69.860 7.072 1.696 1.562 H19 HGD 59
HGD H20 H20 H 0 1 N N N N N N 25.903 26.127 69.027 7.310 -0.023 1.168 H20 HGD 60
HGD H21 H21 H 0 1 N N N N N N 22.367 27.225 68.180 10.226 1.640 -0.309 H21 HGD 61
HGD H22 H22 H 0 1 N N N N N N 24.352 25.982 73.586 3.497 -0.060 -0.976 H22 HGD 62
HGD H23 H23 H 0 1 N N N N N N 23.205 24.124 72.940 1.799 1.006 1.148 H23 HGD 63
HGD H24 H24 H 0 1 N N N N N N 25.589 24.258 74.977 3.124 2.787 0.060 H24 HGD 64
HGD H25 H25 H 0 1 N N N N N N 26.906 24.377 73.761 4.013 2.326 -1.412 H25 HGD 65
HGD H26 H26 H 0 1 N N N N N N 24.570 18.416 71.437 -1.286 -2.767 2.540 H26 HGD 66
HGD H27 H27 H 0 1 N N N N N N 26.218 18.998 74.710 -1.324 -6.293 1.904 H27 HGD 67
HGD H28 H28 H 0 1 N N N N N N 22.497 19.573 71.250 -0.842 -2.982 4.871 H28 HGD 68
HGD H29 H29 H 0 1 N N N N N N 22.446 18.500 72.479 0.777 -3.241 4.593 H29 HGD 69
HGD H31 H31 H 0 1 N N N N N N 25.865 20.754 72.175 1.714 -3.289 2.349 H31 HGD 70
HGD H32 H32 H 0 1 N N N N N N 25.238 20.404 70.528 0.598 -3.286 0.962 H32 HGD 71
HGD H33 H33 H 0 1 N N N N N N 23.542 21.961 70.709 -0.032 -0.943 1.474 H33 HGD 72
HGD H34 H34 H 0 1 N N N N N N 23.223 21.564 72.431 1.083 -0.946 2.861 H34 HGD 73
#
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
HGD N1 CA1 SING N N 1
HGD CA1 C1 SING N N 2
HGD CA1 CB1 SING N N 3
HGD C1 OE1 DOUB N N 4
HGD C1 OE2 SING N N 5
HGD CB1 CG1 SING N N 6
HGD CG1 CD1 SING N N 7
HGD CD1 O1 DOUB N N 8
HGD CD1 N2 SING N N 9
HGD N2 CA2 SING N N 10
HGD CA2 C2 SING N N 11
HGD CA2 CB2 SING N N 12
HGD C2 O2 DOUB N N 13
HGD C2 N3 SING N N 14
HGD CB2 SG2 SING N N 15
HGD N3 CA3 SING N N 16
HGD CA3 C3 SING N N 17
HGD C3 OE3 DOUB N N 18
HGD C3 OE4 SING N N 19
HGD N4 CA4 SING N N 20
HGD N4 C5 SING N N 21
HGD CA4 C4 SING N N 22
HGD C4 OE5 DOUB N N 23
HGD C4 OE6 SING N N 24
HGD C5 O5 DOUB N N 25
HGD C5 CA5 SING N N 26
HGD CA5 N5 SING N N 27
HGD CA5 CB5 SING N N 28
HGD N5 CD6 SING N N 29
HGD CB5 SG5 SING N N 30
HGD CA6 C6 SING N N 31
HGD CA6 N6 SING N N 32
HGD CA6 CB6 SING N N 33
HGD C6 OE7 DOUB N N 34
HGD C6 OE8 SING N N 35
HGD CB6 CG6 SING N N 36
HGD CG6 CD6 SING N N 37
HGD CD6 O6 DOUB N N 38
HGD SG5 HG1 SING N N 39
HGD HG1 SG2 SING N N 40
HGD N1 H1 SING N N 41
HGD N1 H2 SING N N 42
HGD CA1 H4 SING N N 43
HGD OE2 H5 SING N N 44
HGD CB1 H6 SING N N 45
HGD CB1 H7 SING N N 46
HGD CG1 H8 SING N N 47
HGD CG1 H9 SING N N 48
HGD N2 H10 SING N N 49
HGD CA2 H11 SING N N 50
HGD CB2 H12 SING N N 51
HGD CB2 H13 SING N N 52
HGD N3 H14 SING N N 53
HGD CA3 H15 SING N N 54
HGD CA3 H16 SING N N 55
HGD OE4 H17 SING N N 56
HGD N4 H18 SING N N 57
HGD CA4 H19 SING N N 58
HGD CA4 H20 SING N N 59
HGD OE6 H21 SING N N 60
HGD CA5 H22 SING N N 61
HGD N5 H23 SING N N 62
HGD CB5 H24 SING N N 63
HGD CB5 H25 SING N N 64
HGD CA6 H26 SING N N 65
HGD OE8 H27 SING N N 66
HGD N6 H28 SING N N 67
HGD N6 H29 SING N N 68
HGD CB6 H31 SING N N 69
HGD CB6 H32 SING N N 70
HGD CG6 H33 SING N N 71
HGD CG6 H34 SING N N 72
#
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
HGD SMILES ACDLabs 12.01 O=C(NC(C(=O)NCC(=O)O)CS[Hg]SCC(C(=O)NCC(=O)O)NC(=O)CCC(C(=O)O)N)CCC(C(=O)O)N
HGD InChI InChI 1.03 InChI=1S/2C10H17N3O6S.Hg/c2*11-5(10(18)19)1-2-7(14)13-6(4-20)9(17)12-3-8(15)16;/h2*5-6,20H,1-4,11H2,(H,12,17)(H,13,14)(H,15,16)(H,18,19);/q;;+2/p-2/t2*5-,6-;/m00./s1
HGD InChIKey InChI 1.03 LUQCMRZJGIPGCC-PRKWKTPOSA-L
HGD SMILES_CANONICAL CACTVS 3.385 N[C@@H](CCC(=O)N[C@@H](CS[Hg]SC[C@H](NC(=O)CC[C@H](N)C(O)=O)C(=O)NCC(O)=O)C(=O)NCC(O)=O)C(O)=O
HGD SMILES CACTVS 3.385 N[CH](CCC(=O)N[CH](CS[Hg]SC[CH](NC(=O)CC[CH](N)C(O)=O)C(=O)NCC(O)=O)C(=O)NCC(O)=O)C(O)=O
HGD SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 C(CC(=O)N[C@@H](CS[Hg]SC[C@@H](C(=O)NCC(=O)O)NC(=O)CC[C@@H](C(=O)O)N)C(=O)NCC(=O)O)[C@@H](C(=O)O)N
HGD SMILES "OpenEye OEToolkits" 1.7.6 C(CC(=O)NC(CS[Hg]SCC(C(=O)NCC(=O)O)NC(=O)CCC(C(=O)O)N)C(=O)NCC(=O)O)C(C(=O)O)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
HGD "SYSTEMATIC NAME" ACDLabs 12.01 "mercury bis(L-gamma-glutamyl-3-sulfido-L-alanylglycine)"
HGD "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 bis[[(2R)-2-[[(4S)-4-azanyl-5-oxidanyl-5-oxidanylidene-pentanoyl]amino]-3-(2-hydroxy-2-oxoethylamino)-3-oxidanylidene-propyl]sulfanyl]mercury
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
HGD 'Create component' 2013-10-31 RCSB
HGD 'Initial release' 2014-03-19 RCSB
HGD 'Modify synonyms' 2020-06-05 PDBE
#
_pdbx_chem_comp_synonyms.ordinal 1
_pdbx_chem_comp_synonyms.comp_id HGD
_pdbx_chem_comp_synonyms.name "S-Mercury glutathione"
_pdbx_chem_comp_synonyms.provenance ?
_pdbx_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_synonyms.comp_id HGD
_pdbe_chem_comp_synonyms.name 'S-Mercury glutathione'
_pdbe_chem_comp_synonyms.provenance wwPDB
_pdbe_chem_comp_synonyms.type ?
#
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
HGD N1 N -5.851 -0.091 1
HGD CA1 C -4.560 0.665 2
HGD C1 C -3.252 -0.079 3
HGD OE1 O -3.245 -1.579 4
HGD OE2 O -1.954 0.676 5
HGD CB1 C -4.574 2.156 6
HGD CG1 C -3.293 2.895 7
HGD CD1 C -3.284 4.373 8
HGD O1 O -4.569 5.150 9
HGD N2 N -2.004 5.070 10
HGD CA2 C -0.719 4.289 11
HGD C2 C 0.604 5.066 12
HGD O2 O 0.594 6.575 13
HGD CB2 C -0.686 2.703 14
HGD SG2 S 0.708 2.135 15
HGD N3 N 1.922 4.331 16
HGD CA3 C 3.222 5.106 17
HGD C3 C 4.541 4.376 18
HGD OE3 O 4.567 2.877 19
HGD OE4 O 5.831 5.148 20
HGD N4 N -3.332 -3.029 21
HGD CA4 C -4.599 -3.810 22
HGD C4 C -5.888 -3.077 23
HGD OE5 O -5.885 -1.579 24
HGD OE6 O -7.183 -3.827 25
HGD C5 C -2.040 -3.727 26
HGD O5 O -2.001 -5.241 27
HGD CA5 C -0.754 -2.952 28
HGD N5 N 0.559 -3.741 29
HGD CB5 C -0.707 -1.369 30
HGD SG5 S 0.692 -0.816 31
HGD CA6 C 5.818 -3.864 32
HGD C6 C 7.128 -3.119 33
HGD OE7 O 7.138 -1.619 34
HGD OE8 O 8.424 -3.877 35
HGD N6 N 5.810 -5.364 36
HGD CB6 C 4.516 -3.097 37
HGD CG6 C 3.188 -3.824 38
HGD CD6 C 1.893 -3.030 39
HGD O6 O 1.938 -1.536 40
HGD HG1 Hg 1.285 0.656 41
#
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
HGD CA1 N1 SINGLE BEGINWEDGE 1
HGD CA1 C1 SINGLE NONE 2
HGD CA1 CB1 SINGLE NONE 3
HGD C1 OE1 DOUBLE NONE 4
HGD C1 OE2 SINGLE NONE 5
HGD CB1 CG1 SINGLE NONE 6
HGD CG1 CD1 SINGLE NONE 7
HGD CD1 O1 DOUBLE NONE 8
HGD CD1 N2 SINGLE NONE 9
HGD N2 CA2 SINGLE NONE 10
HGD CA2 C2 SINGLE NONE 11
HGD CA2 CB2 SINGLE BEGINDASH 12
HGD C2 O2 DOUBLE NONE 13
HGD C2 N3 SINGLE NONE 14
HGD CB2 SG2 SINGLE NONE 15
HGD N3 CA3 SINGLE NONE 16
HGD CA3 C3 SINGLE NONE 17
HGD C3 OE3 DOUBLE NONE 18
HGD C3 OE4 SINGLE NONE 19
HGD N4 CA4 SINGLE NONE 20
HGD N4 C5 SINGLE NONE 21
HGD CA4 C4 SINGLE NONE 22
HGD C4 OE5 DOUBLE NONE 23
HGD C4 OE6 SINGLE NONE 24
HGD C5 O5 DOUBLE NONE 25
HGD C5 CA5 SINGLE NONE 26
HGD CA5 N5 SINGLE NONE 27
HGD CA5 CB5 SINGLE BEGINDASH 28
HGD N5 CD6 SINGLE NONE 29
HGD CB5 SG5 SINGLE NONE 30
HGD CA6 C6 SINGLE NONE 31
HGD CA6 N6 SINGLE BEGINWEDGE 32
HGD CA6 CB6 SINGLE NONE 33
HGD C6 OE7 DOUBLE NONE 34
HGD C6 OE8 SINGLE NONE 35
HGD CB6 CG6 SINGLE NONE 36
HGD CG6 CD6 SINGLE NONE 37
HGD CD6 O6 DOUBLE NONE 38
HGD SG5 HG1 SINGLE NONE 39
HGD HG1 SG2 SINGLE NONE 40
#
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
HGD amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
HGD peptide F2 fragment NCC=O InChI=1S/C2H5NO/c3-1-2-4/h2H,1,3H2 LYIIBVSRGJSHAV-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
HGD N2 F1 1
HGD CD1 F1 1
HGD O1 F1 1
HGD CG1 F1 1
HGD N3 F1 2
HGD C2 F1 2
HGD O2 F1 2
HGD CA2 F1 2
HGD N4 F1 3
HGD C5 F1 3
HGD O5 F1 3
HGD CA5 F1 3
HGD N5 F1 4
HGD CD6 F1 4
HGD O6 F1 4
HGD CG6 F1 4
HGD OE1 F2 1
HGD C1 F2 1
HGD CA1 F2 1
HGD N1 F2 1
HGD O2 F2 2
HGD C2 F2 2
HGD CA2 F2 2
HGD N2 F2 2
HGD OE3 F2 3
HGD C3 F2 3
HGD CA3 F2 3
HGD N3 F2 3
HGD OE5 F2 4
HGD C4 F2 4
HGD CA4 F2 4
HGD N4 F2 4
HGD O5 F2 5
HGD C5 F2 5
HGD CA5 F2 5
HGD N5 F2 5
HGD OE7 F2 6
HGD C6 F2 6
HGD CA6 F2 6
HGD N6 F2 6
#
_pdbe_chem_comp_rdkit_properties.comp_id HGD
_pdbe_chem_comp_rdkit_properties.exactmw 814.123
_pdbe_chem_comp_rdkit_properties.amw 813.230
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 18
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 12
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 24
_pdbe_chem_comp_rdkit_properties.NumHBD 10
_pdbe_chem_comp_rdkit_properties.NumHBA 16
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 41
_pdbe_chem_comp_rdkit_properties.NumAtoms 73
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 21
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 4
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.600
_pdbe_chem_comp_rdkit_properties.NumRings 0
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 4
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 295.843
_pdbe_chem_comp_rdkit_properties.tpsa 317.640
_pdbe_chem_comp_rdkit_properties.CrippenClogP -3.879
_pdbe_chem_comp_rdkit_properties.CrippenMR 139.759
_pdbe_chem_comp_rdkit_properties.chi0v 26.237
_pdbe_chem_comp_rdkit_properties.chi1v 24.609
_pdbe_chem_comp_rdkit_properties.chi2v 15.979
_pdbe_chem_comp_rdkit_properties.chi3v 15.979
_pdbe_chem_comp_rdkit_properties.chi4v 11.959
_pdbe_chem_comp_rdkit_properties.chi0n 51.106
_pdbe_chem_comp_rdkit_properties.chi1n 24.382
_pdbe_chem_comp_rdkit_properties.chi2n 2.747
_pdbe_chem_comp_rdkit_properties.chi3n 2.747
_pdbe_chem_comp_rdkit_properties.chi4n 1.339
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.685
_pdbe_chem_comp_rdkit_properties.kappa1 11.104
_pdbe_chem_comp_rdkit_properties.kappa2 21.081
_pdbe_chem_comp_rdkit_properties.kappa3 19.136
_pdbe_chem_comp_rdkit_properties.Phi 5.709
#
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
HGD UniChem PDBe HGD
HGD UniChem PubChem 101857374
HGD UniChem PubChem 73254850
HGD UniChem Nikkaji J2.592.324C
#
loop_
_pdbe_chem_comp_rdkit_conformer.comp_id
_pdbe_chem_comp_rdkit_conformer.atom_id
_pdbe_chem_comp_rdkit_conformer.Cartn_x_rdkit
_pdbe_chem_comp_rdkit_conformer.Cartn_y_rdkit
_pdbe_chem_comp_rdkit_conformer.Cartn_z_rdkit
_pdbe_chem_comp_rdkit_conformer.rdkit_method
_pdbe_chem_comp_rdkit_conformer.rdkit_ordinal
HGD N1 7.065 0.323 -3.419 ETKDGv3 1
HGD CA1 6.563 1.605 -2.917 ETKDGv3 2
HGD C1 7.718 2.457 -2.468 ETKDGv3 3
HGD OE1 7.805 3.655 -2.849 ETKDGv3 4
HGD OE2 8.678 1.931 -1.608 ETKDGv3 5
HGD CB1 5.601 1.390 -1.732 ETKDGv3 6
HGD CG1 4.279 0.738 -2.158 ETKDGv3 7
HGD CD1 3.328 0.682 -1.001 ETKDGv3 8
HGD O1 3.272 -0.360 -0.292 ETKDGv3 9
HGD N2 2.517 1.823 -0.679 ETKDGv3 10
HGD CA2 1.528 1.795 0.403 ETKDGv3 11
HGD C2 0.404 0.862 0.033 ETKDGv3 12
HGD O2 0.030 -0.015 0.858 ETKDGv3 13
HGD CB2 1.003 3.210 0.685 ETKDGv3 14
HGD SG2 -0.034 3.244 2.180 ETKDGv3 15
HGD N3 -0.222 0.956 -1.254 ETKDGv3 16
HGD CA3 -0.976 -0.153 -1.829 ETKDGv3 17
HGD C3 -0.033 -1.189 -2.351 ETKDGv3 18
HGD OE3 0.315 -1.173 -3.562 ETKDGv3 19
HGD OE4 0.501 -2.139 -1.486 ETKDGv3 20
HGD N4 -3.893 1.778 3.122 ETKDGv3 21
HGD CA4 -4.644 2.235 4.289 ETKDGv3 22
HGD C4 -3.745 2.952 5.245 ETKDGv3 23
HGD OE5 -3.553 4.192 5.122 ETKDGv3 24
HGD OE6 -3.080 2.240 6.238 ETKDGv3 25
HGD C5 -4.534 1.075 2.049 ETKDGv3 26
HGD O5 -5.764 0.804 2.113 ETKDGv3 27
HGD CA5 -3.742 0.658 0.837 ETKDGv3 28
HGD N5 -3.828 -0.795 0.670 ETKDGv3 29
HGD CB5 -4.248 1.372 -0.428 ETKDGv3 30
HGD SG5 -4.150 3.189 -0.289 ETKDGv3 31
HGD CA6 -2.185 -5.051 -0.161 ETKDGv3 32
HGD C6 -1.228 -5.321 -1.286 ETKDGv3 33
HGD OE7 -1.654 -5.406 -2.469 ETKDGv3 34
HGD OE8 0.136 -5.434 -1.031 ETKDGv3 35
HGD N6 -1.871 -5.938 0.963 ETKDGv3 36
HGD CB6 -2.114 -3.560 0.235 ETKDGv3 37
HGD CG6 -3.174 -3.177 1.276 ETKDGv3 38
HGD CD6 -3.134 -1.702 1.540 ETKDGv3 39
HGD O6 -2.449 -1.262 2.503 ETKDGv3 40
HGD HG1 -2.059 3.207 0.894 ETKDGv3 41
HGD H1 6.289 -0.166 -3.920 ETKDGv3 42
HGD H2 7.787 0.513 -4.153 ETKDGv3 43
HGD H4 6.026 2.136 -3.736 ETKDGv3 44
HGD H5 9.456 2.497 -1.289 ETKDGv3 45
HGD H6 5.374 2.378 -1.273 ETKDGv3 46
HGD H7 6.093 0.758 -0.959 ETKDGv3 47
HGD H8 4.459 -0.295 -2.524 ETKDGv3 48
HGD H9 3.814 1.320 -2.983 ETKDGv3 49
HGD H10 2.627 2.687 -1.257 ETKDGv3 50
HGD H11 2.029 1.427 1.327 ETKDGv3 51
HGD H12 1.863 3.893 0.854 ETKDGv3 52
HGD H13 0.418 3.597 -0.177 ETKDGv3 53
HGD H14 -0.005 1.774 -1.867 ETKDGv3 54
HGD H15 -1.646 -0.599 -1.067 ETKDGv3 55
HGD H16 -1.611 0.224 -2.660 ETKDGv3 56
HGD H17 1.161 -2.830 -1.819 ETKDGv3 57
HGD H18 -2.866 1.964 3.061 ETKDGv3 58
HGD H19 -5.100 1.361 4.802 ETKDGv3 59
HGD H20 -5.459 2.918 3.963 ETKDGv3 60
HGD H21 -2.452 2.708 6.880 ETKDGv3 61
HGD H22 -2.673 0.926 0.970 ETKDGv3 62
HGD H23 -4.377 -1.194 -0.125 ETKDGv3 63
HGD H24 -3.633 1.060 -1.297 ETKDGv3 64
HGD H25 -5.303 1.090 -0.634 ETKDGv3 65
HGD H26 -3.215 -5.279 -0.518 ETKDGv3 66
HGD H27 0.793 -5.599 -1.784 ETKDGv3 67
HGD H28 -2.684 -5.958 1.621 ETKDGv3 68
HGD H29 -1.043 -5.572 1.488 ETKDGv3 69
HGD H31 -2.280 -2.947 -0.679 ETKDGv3 70
HGD H32 -1.102 -3.318 0.629 ETKDGv3 71
HGD H33 -4.185 -3.456 0.910 ETKDGv3 72
HGD H34 -2.988 -3.718 2.228 ETKDGv3 73
#