data_MDP
# 
_chem_comp.id                                    MDP 
_chem_comp.name                                  "N-carboxyl-N-methyl-beta-muramic acid" 
_chem_comp.type                                  "D-saccharide, beta linking" 
_chem_comp.pdbx_type                             ATOMS 
_chem_comp.formula                               "C11 H19 N O9" 
_chem_comp.mon_nstd_parent_comp_id               MUR 
_chem_comp.pdbx_synonyms                         "N-CARBOXY-N-METHYL-MURAMIC ACID" 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     1999-07-08 
_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                        309.270 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     MDP 
_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        1LOC 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  RCSB 
_chem_comp.pdbx_pcm                              Y 
# 
_pdbx_chem_comp_synonyms.ordinal      1 
_pdbx_chem_comp_synonyms.comp_id      MDP 
_pdbx_chem_comp_synonyms.name         "N-CARBOXY-N-METHYL-MURAMIC ACID" 
_pdbx_chem_comp_synonyms.provenance   PDB 
_pdbx_chem_comp_synonyms.type         ? 
# 
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 
MDP C1   C1   C 0 1 N N S N N N 38.509 51.366 49.701 -1.734 -1.471 -0.155 C1   MDP 1  
MDP O1   O1   O 0 1 N Y N N N N 39.508 52.255 49.953 -1.984 -2.725 -0.792 O1   MDP 2  
MDP C2   C2   C 0 1 N N R N N N 37.354 51.885 48.839 -0.426 -0.880 -0.688 C2   MDP 3  
MDP N2   N2   N 0 1 N N N N N N 37.459 53.326 48.889 0.687  -1.771 -0.352 N2   MDP 4  
MDP C3   C3   C 0 1 N N R N N N 36.337 51.049 49.632 -0.195 0.491  -0.045 C3   MDP 5  
MDP O3   O3   O 0 1 N N N N N N 34.971 51.313 49.226 0.985  1.083  -0.591 O3   MDP 6  
MDP C4   C4   C 0 1 N N S N N N 36.653 49.551 49.424 -1.401 1.390  -0.337 C4   MDP 7  
MDP O4   O4   O 0 1 N N N N N N 35.819 48.823 50.339 -1.230 2.648  0.319  O4   MDP 8  
MDP C5   C5   C 0 1 N N R N N N 38.140 49.206 49.710 -2.671 0.711  0.182  C5   MDP 9  
MDP O5   O5   O 0 1 N N N N N N 38.944 50.205 49.112 -2.809 -0.572 -0.432 O5   MDP 10 
MDP C6   C6   C 0 1 N N N N N N 38.716 47.868 49.275 -3.887 1.574  -0.159 C6   MDP 11 
MDP O6   O6   O 0 1 N N N N N N 38.768 47.891 47.880 -5.058 1.000  0.426  O6   MDP 12 
MDP C7   C7   C 0 1 N N R N N N 34.270 52.244 50.078 2.050  1.232  0.350  C7   MDP 13 
MDP C8   C8   C 0 1 N N N N N N 33.523 53.255 49.197 3.370  1.206  -0.376 C8   MDP 14 
MDP O8   O8   O 0 1 N N N N N N 32.398 53.684 49.477 3.394  1.165  -1.584 O8   MDP 15 
MDP O9   O9   O 0 1 N N N N N N 33.756 53.084 47.889 4.519  1.229  0.318  O9   MDP 16 
MDP C9   C9   C 0 1 N N N N N N 33.430 51.490 51.138 1.898  2.565  1.085  C9   MDP 17 
MDP C10  C10  C 0 1 N N N N N N 37.096 54.258 48.008 0.960  -2.053 0.937  C10  MDP 18 
MDP O10  O10  O 0 1 N N N N N N 37.102 55.463 48.297 0.282  -1.568 1.821  O10  MDP 19 
MDP O11  O11  O 0 1 N N N N N N 37.190 53.998 46.811 1.983  -2.872 1.245  O11  MDP 20 
MDP C11  C11  C 0 1 N N N N N N 37.136 53.889 50.204 1.504  -2.356 -1.418 C11  MDP 21 
MDP H1   H1   H 0 1 N N N N N N 38.134 51.181 50.719 -1.653 -1.620 0.922  H1   MDP 22 
MDP HO1  HO1  H 0 1 N Y N N N N 40.172 51.841 50.491 -2.799 -3.158 -0.502 HO1  MDP 23 
MDP H2   H2   H 0 1 N N N N N N 37.194 51.774 47.756 -0.491 -0.769 -1.770 H2   MDP 24 
MDP H3   H3   H 0 1 N N N N N N 36.424 51.326 50.693 -0.079 0.374  1.033  H3   MDP 25 
MDP H4   H4   H 0 1 N N N N N N 36.464 49.287 48.373 -1.485 1.548  -1.412 H4   MDP 26 
MDP HO4  HO4  H 0 1 N Y N N N N 35.982 47.892 50.244 -1.958 3.268  0.177  HO4  MDP 27 
MDP H5   H5   H 0 1 N N N N N N 38.153 49.147 50.808 -2.603 0.590  1.263  H5   MDP 28 
MDP H61  H61  H 0 1 N N N N N N 39.723 47.729 49.695 -3.741 2.580  0.234  H61  MDP 29 
MDP H62  H62  H 0 1 N N N N N N 38.076 47.043 49.622 -4.008 1.620  -1.242 H62  MDP 30 
MDP HO6  HO6  H 0 1 N Y N N N N 39.124 47.069 47.562 -5.869 1.496  0.250  HO6  MDP 31 
MDP H7   H7   H 0 1 N N N N N N 34.961 52.845 50.687 2.015  0.414  1.070  H7   MDP 32 
MDP HO9  HO9  H 0 1 N N N N N N 32.984 53.333 47.394 5.340  1.211  -0.192 HO9  MDP 33 
MDP H91  H91  H 0 1 N N N N N N 32.905 52.217 51.775 2.756  2.719  1.740  H91  MDP 34 
MDP H92  H92  H 0 1 N N N N N N 32.694 50.847 50.633 1.846  3.377  0.359  H92  MDP 35 
MDP H93  H93  H 0 1 N N N N N N 34.094 50.870 51.759 0.985  2.551  1.679  H93  MDP 36 
MDP H11  H11  H 0 1 N N N N N N 37.252 54.806 46.315 2.139  -3.045 2.184  H11  MDP 37 
MDP H111 H111 H 0 0 N N N N N N 37.236 54.984 50.169 2.340  -1.694 -1.641 H111 MDP 38 
MDP H112 H112 H 0 0 N N N N N N 36.103 53.624 50.472 1.883  -3.326 -1.095 H112 MDP 39 
MDP H113 H113 H 0 0 N N N N N N 37.827 53.481 50.957 0.895  -2.485 -2.313 H113 MDP 40 
# 
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 
MDP C1  O1   SING N N 1  
MDP C1  C2   SING N N 2  
MDP C1  O5   SING N N 3  
MDP C1  H1   SING N N 4  
MDP O1  HO1  SING N N 5  
MDP C2  N2   SING N N 6  
MDP C2  C3   SING N N 7  
MDP C2  H2   SING N N 8  
MDP N2  C10  SING N N 9  
MDP N2  C11  SING N N 10 
MDP C3  O3   SING N N 11 
MDP C3  C4   SING N N 12 
MDP C3  H3   SING N N 13 
MDP O3  C7   SING N N 14 
MDP C4  O4   SING N N 15 
MDP C4  C5   SING N N 16 
MDP C4  H4   SING N N 17 
MDP O4  HO4  SING N N 18 
MDP C5  O5   SING N N 19 
MDP C5  C6   SING N N 20 
MDP C5  H5   SING N N 21 
MDP C6  O6   SING N N 22 
MDP C6  H61  SING N N 23 
MDP C6  H62  SING N N 24 
MDP O6  HO6  SING N N 25 
MDP C7  C8   SING N N 26 
MDP C7  C9   SING N N 27 
MDP C7  H7   SING N N 28 
MDP C8  O8   DOUB N N 29 
MDP C8  O9   SING N N 30 
MDP O9  HO9  SING N N 31 
MDP C9  H91  SING N N 32 
MDP C9  H92  SING N N 33 
MDP C9  H93  SING N N 34 
MDP C10 O10  DOUB N N 35 
MDP C10 O11  SING N N 36 
MDP O11 H11  SING N N 37 
MDP C11 H111 SING N N 38 
MDP C11 H112 SING N N 39 
MDP C11 H113 SING N N 40 
# 
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 
MDP SMILES           ACDLabs              11.02 "O=C(O)C(OC1C(O)C(OC(O)C1N(C(=O)O)C)CO)C"                                                                                                              
MDP SMILES_CANONICAL CACTVS               3.352 "C[C@@H](O[C@H]1[C@H](O)[C@@H](CO)O[C@H](O)[C@@H]1N(C)C(O)=O)C(O)=O"                                                                                   
MDP SMILES           CACTVS               3.352 "C[CH](O[CH]1[CH](O)[CH](CO)O[CH](O)[CH]1N(C)C(O)=O)C(O)=O"                                                                                            
MDP SMILES_CANONICAL "OpenEye OEToolkits" 1.7.0 "C[C@H](C(=O)O)O[C@@H]1[C@H]([C@@H](O[C@@H]([C@H]1O)CO)O)N(C)C(=O)O"                                                                                   
MDP SMILES           "OpenEye OEToolkits" 1.7.0 "CC(C(=O)O)OC1C(C(OC(C1O)CO)O)N(C)C(=O)O"                                                                                                              
MDP InChI            InChI                1.03  "InChI=1S/C11H19NO9/c1-4(9(15)16)20-8-6(12(2)11(18)19)10(17)21-5(3-13)7(8)14/h4-8,10,13-14,17H,3H2,1-2H3,(H,15,16)(H,18,19)/t4-,5-,6-,7-,8-,10-/m1/s1" 
MDP InChIKey         InChI                1.03  PVOFHMJNZUCTDT-MXGCPANSSA-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 
MDP "SYSTEMATIC NAME" ACDLabs              11.02 "3-O-[(1R)-1-carboxyethyl]-2-[carboxy(methyl)amino]-2-deoxy-alpha-D-glucopyranose"                             
MDP "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.6.1 "(2R)-2-[(2R,3R,4R,5S,6R)-3-[carboxy(methyl)amino]-2,5-dihydroxy-6-(hydroxymethyl)oxan-4-yl]oxypropanoic acid" 
# 
_pdbx_chem_comp_related.comp_id             MDP 
_pdbx_chem_comp_related.related_comp_id     MUR 
_pdbx_chem_comp_related.relationship_type   "Carbohydrate core" 
_pdbx_chem_comp_related.details             ? 
# 
loop_
_pdbx_chem_comp_atom_related.ordinal 
_pdbx_chem_comp_atom_related.comp_id 
_pdbx_chem_comp_atom_related.atom_id 
_pdbx_chem_comp_atom_related.related_comp_id 
_pdbx_chem_comp_atom_related.related_atom_id 
_pdbx_chem_comp_atom_related.related_type 
1  MDP C1  MUR C1  "Carbohydrate core" 
2  MDP C2  MUR C2  "Carbohydrate core" 
3  MDP C3  MUR C3  "Carbohydrate core" 
4  MDP C4  MUR C4  "Carbohydrate core" 
5  MDP C5  MUR C5  "Carbohydrate core" 
6  MDP C6  MUR C6  "Carbohydrate core" 
7  MDP C7  MUR C7  "Carbohydrate core" 
8  MDP C8  MUR C8  "Carbohydrate core" 
9  MDP C9  MUR C9  "Carbohydrate core" 
10 MDP N2  MUR N2  "Carbohydrate core" 
11 MDP O1  MUR O1  "Carbohydrate core" 
12 MDP O3  MUR O3  "Carbohydrate core" 
13 MDP O4  MUR O4  "Carbohydrate core" 
14 MDP O5  MUR O5  "Carbohydrate core" 
15 MDP O6  MUR O6  "Carbohydrate core" 
16 MDP O8  MUR O8  "Carbohydrate core" 
17 MDP O9  MUR O9  "Carbohydrate core" 
18 MDP H1  MUR H1  "Carbohydrate core" 
19 MDP H2  MUR H2  "Carbohydrate core" 
20 MDP H3  MUR H3  "Carbohydrate core" 
21 MDP H4  MUR H4  "Carbohydrate core" 
22 MDP H5  MUR H5  "Carbohydrate core" 
23 MDP H61 MUR H61 "Carbohydrate core" 
24 MDP H62 MUR H62 "Carbohydrate core" 
25 MDP H7  MUR H7  "Carbohydrate core" 
26 MDP H91 MUR H91 "Carbohydrate core" 
27 MDP H92 MUR H92 "Carbohydrate core" 
28 MDP H93 MUR H93 "Carbohydrate core" 
29 MDP HO1 MUR HO1 "Carbohydrate core" 
30 MDP HO4 MUR HO4 "Carbohydrate core" 
31 MDP HO6 MUR HO6 "Carbohydrate core" 
32 MDP HO9 MUR HO9 "Carbohydrate core" 
# 
loop_
_pdbx_chem_comp_feature.comp_id 
_pdbx_chem_comp_feature.type 
_pdbx_chem_comp_feature.value 
_pdbx_chem_comp_feature.source 
_pdbx_chem_comp_feature.support 
MDP "CARBOHYDRATE ISOMER"                 D        PDB ? 
MDP "CARBOHYDRATE RING"                   pyranose PDB ? 
MDP "CARBOHYDRATE ANOMER"                 beta     PDB ? 
MDP "CARBOHYDRATE PRIMARY CARBONYL GROUP" aldose   PDB ? 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
MDP "Create component"         1999-07-08 RCSB 
MDP "Modify descriptor"        2011-06-04 RCSB 
MDP "Other modification"       2020-07-03 RCSB 
MDP "Modify parent residue"    2020-07-17 RCSB 
MDP "Modify name"              2020-07-17 RCSB 
MDP "Modify synonyms"          2020-07-17 RCSB 
MDP "Modify linking type"      2020-07-17 RCSB 
MDP "Modify leaving atom flag" 2020-07-17 RCSB 
MDP "Modify PCM"               2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            MDP 
_pdbx_chem_comp_pcm.modified_residue_id                DAL 
_pdbx_chem_comp_pcm.type                               None 
_pdbx_chem_comp_pcm.category                           Carbohydrate 
_pdbx_chem_comp_pcm.position                           "Amino-acid backbone" 
_pdbx_chem_comp_pcm.polypeptide_position               N-terminal 
_pdbx_chem_comp_pcm.comp_id_linking_atom               C8 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   N 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
