data_G5M
# 
_chem_comp.id                                    G5M 
_chem_comp.name                                  "(2S)-2-{[2-(L-cysteinylamino)-2-deoxy-alpha-D-glucopyranosyl]oxy}butanedioic acid" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C13 H22 N2 O10 S" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2018-05-08 
_chem_comp.pdbx_modified_date                    2024-09-27 
_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                        398.386 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     G5M 
_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        6DCK 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  RCSB 
_chem_comp.pdbx_pcm                              Y 
# 
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 
G5M C7  C1  C 0 1 N N N N N N 49.589 122.906 61.391 2.306  0.521  -0.747 C7  G5M 1  
G5M C9  C2  C 0 1 N N S N N N 54.290 121.855 62.034 -1.609 -1.971 0.107  C9  G5M 2  
G5M C4  C3  C 0 1 N N S N N N 51.311 118.682 60.200 -2.039 2.606  0.138  C4  G5M 3  
G5M C6  C4  C 0 1 N N N N N N 53.570 118.100 59.077 -4.200 1.792  -0.818 C6  G5M 4  
G5M C1  C5  C 0 1 N N R N N N 52.507 121.278 60.625 -0.860 0.132  -0.766 C1  G5M 5  
G5M C3  C6  C 0 1 N N R N N N 50.562 119.684 61.090 -0.666 2.171  0.660  C3  G5M 6  
G5M C2  C7  C 0 1 N N R N N N 50.994 121.092 60.666 0.030  1.325  -0.410 C2  G5M 7  
G5M C5  C8  C 0 1 N N R N N N 52.831 118.999 60.070 -2.850 1.363  -0.239 C5  G5M 8  
G5M C10 C9  C 0 1 N N N N N N 55.462 120.972 61.674 -2.986 -2.051 0.714  C10 G5M 9  
G5M C11 C10 C 0 1 N N N N N N 54.465 122.351 63.461 -0.723 -3.066 0.706  C11 G5M 10 
G5M C12 C11 C 0 1 N N N N N N 53.361 123.293 63.858 0.615  -3.064 0.013  C12 G5M 11 
G5M C24 C12 C 0 1 N N N N N N 49.516 123.517 63.838 4.466  1.212  0.255  C24 G5M 12 
G5M C8  C13 C 0 1 N N R N N N 49.381 124.001 62.418 3.625  0.023  -0.216 C8  G5M 13 
G5M N2  N1  N 0 1 N N N N N N 50.586 122.153 61.558 1.313  0.841  0.106  N2  G5M 14 
G5M N25 N2  N 0 1 N N N N N N 48.151 124.763 62.240 4.343  -0.693 -1.280 N25 G5M 15 
G5M O1  O1  O 0 1 N N N N N N 53.076 121.170 61.891 -1.039 -0.691 0.388  O1  G5M 16 
G5M O13 O2  O 0 1 N N N N N N 56.375 121.486 61.039 -3.376 -1.173 1.447  O13 G5M 17 
G5M O14 O3  O 0 1 N N N N N N 55.477 119.780 62.004 -3.780 -3.098 0.439  O14 G5M 18 
G5M O15 O4  O 0 1 N N N N N N 53.342 124.420 63.416 0.837  -2.269 -0.869 O15 G5M 19 
G5M O16 O5  O 0 1 N N N N N N 52.500 122.883 64.620 1.559  -3.946 0.375  O16 G5M 20 
G5M O3  O6  O 0 1 N N N N N N 49.173 119.497 60.948 0.124  3.326  0.948  O3  G5M 21 
G5M O4  O7  O 0 1 N N N N N N 51.082 117.340 60.601 -2.728 3.335  1.156  O4  G5M 22 
G5M O5  O8  O 0 1 N N N N N N 53.087 120.358 59.755 -2.132 0.606  -1.215 O5  G5M 23 
G5M O6  O9  O 0 1 N N N N N N 53.194 118.280 57.732 -5.002 0.635  -1.061 O6  G5M 24 
G5M O7  O10 O 0 1 N N N N N N 48.818 122.817 60.476 2.139  0.638  -1.943 O7  G5M 25 
G5M S26 S1  S 0 1 N N N N N N 48.085 122.720 64.567 6.054  0.613  0.895  S26 G5M 26 
G5M H1  H1  H 0 1 N N N N N N 54.302 122.729 61.366 -1.678 -2.109 -0.972 H1  G5M 27 
G5M H2  H2  H 0 1 N N N N N N 50.892 118.800 59.190 -1.911 3.239  -0.740 H2  G5M 28 
G5M H3  H3  H 0 1 N N N N N N 53.374 117.053 59.351 -4.709 2.444  -0.108 H3  G5M 29 
G5M H4  H4  H 0 1 N N N N N N 54.647 118.306 59.163 -4.041 2.327  -1.754 H4  G5M 30 
G5M H5  H5  H 0 1 N N N N N N 52.695 122.291 60.241 -0.389 -0.450 -1.558 H5  G5M 31 
G5M H6  H6  H 0 1 N N N N N N 50.866 119.522 62.135 -0.791 1.580  1.567  H6  G5M 32 
G5M H7  H7  H 0 1 N N N N N N 50.594 121.287 59.660 0.200  1.931  -1.300 H7  G5M 33 
G5M H8  H8  H 0 1 N N N N N N 53.270 118.796 61.058 -3.012 0.752  0.649  H8  G5M 34 
G5M H9  H9  H 0 1 N N N N N N 54.460 121.487 64.142 -0.581 -2.877 1.770  H9  G5M 35 
G5M H10 H10 H 0 1 N N N N N N 55.428 122.876 63.541 -1.202 -4.035 0.569  H10 G5M 36 
G5M H11 H11 H 0 1 N N N N N N 50.347 122.796 63.865 4.643  1.887  -0.582 H11 G5M 37 
G5M H12 H12 H 0 1 N N N N N N 49.765 124.387 64.463 3.934  1.743  1.044  H12 G5M 38 
G5M H13 H13 H 0 1 N N N N N N 50.207 124.711 62.265 3.448  -0.652 0.621  H13 G5M 39 
G5M H14 H14 H 0 1 N N N N N N 51.141 122.302 62.376 1.448  0.752  1.063  H14 G5M 40 
G5M H15 H15 H 0 1 N N N N N N 48.086 125.462 62.952 4.518  -0.088 -2.068 H15 G5M 41 
G5M H16 H16 H 0 1 N N N N N N 48.158 125.202 61.341 5.201  -1.092 -0.931 H16 G5M 42 
G5M H18 H18 H 0 1 N N N N N N 56.277 119.374 61.691 -4.655 -3.106 0.851  H18 G5M 43 
G5M H19 H19 H 0 1 N N N N N N 51.866 123.571 64.781 2.402  -3.907 -0.098 H19 G5M 44 
G5M H20 H20 H 0 1 N N N N N N 48.711 120.118 61.499 -0.262 3.911  1.615  H20 G5M 45 
G5M H21 H21 H 0 1 N N N N N N 50.147 117.185 60.669 -3.606 3.642  0.894  H21 G5M 46 
G5M H22 H22 H 0 1 N N N N N N 53.694 117.690 57.181 -5.874 0.831  -1.430 H22 G5M 47 
G5M H23 H23 H 0 1 N N N N N N 48.515 122.430 65.759 6.677  1.745  1.266  H23 G5M 48 
# 
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 
G5M O6  C6  SING N N 1  
G5M C6  C5  SING N N 2  
G5M O5  C5  SING N N 3  
G5M O5  C1  SING N N 4  
G5M C5  C4  SING N N 5  
G5M C4  O4  SING N N 6  
G5M C4  C3  SING N N 7  
G5M O7  C7  DOUB N N 8  
G5M C1  C2  SING N N 9  
G5M C1  O1  SING N N 10 
G5M C2  C3  SING N N 11 
G5M C2  N2  SING N N 12 
G5M O3  C3  SING N N 13 
G5M O13 C10 DOUB N N 14 
G5M C7  N2  SING N N 15 
G5M C7  C8  SING N N 16 
G5M C10 O14 SING N N 17 
G5M C10 C9  SING N N 18 
G5M O1  C9  SING N N 19 
G5M C9  C11 SING N N 20 
G5M N25 C8  SING N N 21 
G5M C8  C24 SING N N 22 
G5M O15 C12 DOUB N N 23 
G5M C11 C12 SING N N 24 
G5M C24 S26 SING N N 25 
G5M C12 O16 SING N N 26 
G5M C9  H1  SING N N 27 
G5M C4  H2  SING N N 28 
G5M C6  H3  SING N N 29 
G5M C6  H4  SING N N 30 
G5M C1  H5  SING N N 31 
G5M C3  H6  SING N N 32 
G5M C2  H7  SING N N 33 
G5M C5  H8  SING N N 34 
G5M C11 H9  SING N N 35 
G5M C11 H10 SING N N 36 
G5M C24 H11 SING N N 37 
G5M C24 H12 SING N N 38 
G5M C8  H13 SING N N 39 
G5M N2  H14 SING N N 40 
G5M N25 H15 SING N N 41 
G5M N25 H16 SING N N 42 
G5M O14 H18 SING N N 43 
G5M O16 H19 SING N N 44 
G5M O3  H20 SING N N 45 
G5M O4  H21 SING N N 46 
G5M O6  H22 SING N N 47 
G5M S26 H23 SING N N 48 
# 
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 
G5M SMILES           ACDLabs              12.01 "C(NC1C(OC(CC(O)=O)C(O)=O)OC(C(O)C1O)CO)(C(CS)N)=O"                                                                                                                                          
G5M InChI            InChI                1.03  "InChI=1S/C13H22N2O10S/c14-4(3-26)11(21)15-8-10(20)9(19)6(2-16)25-13(8)24-5(12(22)23)1-7(17)18/h4-6,8-10,13,16,19-20,26H,1-3,14H2,(H,15,21)(H,17,18)(H,22,23)/t4-,5-,6+,8+,9+,10+,13-/m0/s1" 
G5M InChIKey         InChI                1.03  UHNHELGKNQMNGF-AOQKXWSCSA-N                                                                                                                                                                  
G5M SMILES_CANONICAL CACTVS               3.385 "N[C@@H](CS)C(=O)N[C@@H]1[C@@H](O)[C@H](O)[C@@H](CO)O[C@@H]1O[C@@H](CC(O)=O)C(O)=O"                                                                                                          
G5M SMILES           CACTVS               3.385 "N[CH](CS)C(=O)N[CH]1[CH](O)[CH](O)[CH](CO)O[CH]1O[CH](CC(O)=O)C(O)=O"                                                                                                                       
G5M SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "C([C@@H]1[C@H]([C@@H]([C@H]([C@H](O1)O[C@@H](CC(=O)O)C(=O)O)NC(=O)[C@H](CS)N)O)O)O"                                                                                                         
G5M SMILES           "OpenEye OEToolkits" 2.0.6 "C(C1C(C(C(C(O1)OC(CC(=O)O)C(=O)O)NC(=O)C(CS)N)O)O)O"                                                                                                                                        
# 
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 
G5M "SYSTEMATIC NAME" ACDLabs              12.01 "(2S)-2-{[2-(L-cysteinylamino)-2-deoxy-alpha-D-glucopyranosyl]oxy}butanedioic acid"                                                                            
G5M "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "(2~{S})-2-[(2~{R},3~{R},4~{R},5~{S},6~{R})-3-[[(2~{R})-2-azanyl-3-sulfanyl-propanoyl]amino]-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxan-2-yl]oxybutanedioic acid" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
G5M "Create component" 2018-05-08 RCSB 
G5M "Initial release"  2022-04-13 RCSB 
G5M "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            G5M 
_pdbx_chem_comp_pcm.modified_residue_id                CYS 
_pdbx_chem_comp_pcm.type                               None 
_pdbx_chem_comp_pcm.category                           "Covalent chemical modification" 
_pdbx_chem_comp_pcm.position                           "Amino-acid side chain" 
_pdbx_chem_comp_pcm.polypeptide_position               "Any position" 
_pdbx_chem_comp_pcm.comp_id_linking_atom               S26 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   SG 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
