data_MRH
#
_chem_comp.id MRH
_chem_comp.name 4-acetamido-4,6-dideoxy-alpha-D-mannopyranose
_chem_comp.type "D-saccharide, alpha linking"
_chem_comp.pdbx_type ATOMS
_chem_comp.formula "C8 H15 N O5"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms
;alpha-N-Acetylperosamine; 4-acetamido-4,6-dideoxy-alpha-D-mannose; 4-acetamido-4,6-dideoxy-D-mannose;
4-acetamido-4,6-dideoxy-mannose
;
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2019-10-21
_chem_comp.pdbx_modified_date 2020-07-17
_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 205.208
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code MRH
_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 6T72
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site EBI
#
loop_
_pdbx_chem_comp_synonyms.ordinal
_pdbx_chem_comp_synonyms.comp_id
_pdbx_chem_comp_synonyms.name
_pdbx_chem_comp_synonyms.provenance
_pdbx_chem_comp_synonyms.type
1 MRH alpha-N-Acetylperosamine PDB ?
2 MRH 4-acetamido-4,6-dideoxy-alpha-D-mannose PDB ?
3 MRH 4-acetamido-4,6-dideoxy-D-mannose PDB ?
4 MRH 4-acetamido-4,6-dideoxy-mannose PDB ?
#
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
MRH C1 C1 C 0 1 N N S N N N 144.733 229.874 169.056 2.442 0.651 -0.084 C1 MRH 1
MRH O5 O5 O 0 1 N N N N N N 143.361 230.107 168.693 1.394 1.476 0.429 O5 MRH 2
MRH C5 C5 C 0 1 N N R N N N 142.442 229.090 169.109 0.122 1.252 -0.183 C5 MRH 3
MRH C6 C6 C 0 1 N N N N N N 141.087 229.471 168.532 -0.910 2.205 0.422 C6 MRH 4
MRH C4 C4 C 0 1 N N S N N N 142.500 228.933 170.641 -0.313 -0.195 0.062 C4 MRH 5
MRH N4 N4 N 0 1 N N N N N N 141.651 227.860 171.165 -1.588 -0.444 -0.615 N4 MRH 6
MRH C7 C7 C 0 1 N N N N N N 141.192 226.795 170.484 -2.748 -0.129 -0.005 C7 MRH 7
MRH C8 C8 C 0 1 N N N N N N 142.191 225.763 170.049 -4.059 -0.386 -0.701 C8 MRH 8
MRH O7 O7 O 0 1 N N N N N N 139.991 226.631 170.305 -2.736 0.361 1.105 O7 MRH 9
MRH C3 C3 C 0 1 N N S N N N 143.927 228.825 171.187 0.755 -1.142 -0.493 C3 MRH 10
MRH O3 O3 O 0 1 N N N N N N 143.931 228.930 172.606 0.393 -2.494 -0.204 O3 MRH 11
MRH C2 C2 C 0 1 N N S N N N 144.870 229.859 170.568 2.100 -0.820 0.165 C2 MRH 12
MRH O2 O2 O 0 1 N N N N N N 144.615 231.161 171.094 2.012 -1.059 1.571 O2 MRH 13
MRH O1 O1 O 0 1 N Y N N N N 145.342 228.656 168.559 2.582 0.877 -1.488 O1 MRH 14
MRH H1 H1 H 0 1 N N N N N N 145.329 230.722 168.688 3.377 0.897 0.419 H1 MRH 15
MRH H5 H2 H 0 1 N N N N N N 142.742 228.130 168.663 0.199 1.432 -1.255 H5 MRH 16
MRH H61 H3 H 0 1 N N N N N N 140.339 228.719 168.823 -0.600 3.235 0.248 H61 MRH 17
MRH H62 H4 H 0 1 N N N N N N 140.787 230.455 168.921 -1.880 2.034 -0.045 H62 MRH 18
MRH H5A H5 H 0 1 N N N N N N 141.155 229.515 167.435 -0.987 2.024 1.494 H5A MRH 19
MRH H4 H6 H 0 1 N N N N N N 142.098 229.872 171.048 -0.430 -0.364 1.132 H4 MRH 20
MRH H7 H7 H 0 1 N N N N N N 141.386 227.926 172.127 -1.598 -0.836 -1.502 H7 MRH 21
MRH H8 H8 H 0 1 N N N N N N 141.665 224.916 169.583 -4.155 -1.450 -0.915 H8 MRH 22
MRH H9 H9 H 0 1 N N N N N N 142.885 226.209 169.321 -4.880 -0.069 -0.058 H9 MRH 23
MRH H10 H10 H 0 1 N N N N N N 142.755 225.408 170.924 -4.091 0.177 -1.634 H10 MRH 24
MRH H3 H11 H 0 1 N N N N N N 144.307 227.831 170.909 0.835 -1.009 -1.572 H3 MRH 25
MRH HO3 H12 H 0 1 N Y N N N N 143.341 228.282 172.974 1.026 -3.149 -0.528 HO3 MRH 26
MRH H2 H13 H 0 1 N N N N N N 145.901 229.565 170.813 2.878 -1.452 -0.264 H2 MRH 27
MRH HO2 H14 H 0 1 N Y N N N N 144.703 231.144 172.040 2.829 -0.870 2.054 HO2 MRH 28
MRH HO1 H15 H 0 1 N Y N N N N 146.242 228.607 168.858 2.799 1.790 -1.720 HO1 MRH 29
#
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
MRH C6 C5 SING N N 1
MRH O5 C1 SING N N 2
MRH O5 C5 SING N N 3
MRH C1 C2 SING N N 4
MRH C5 C4 SING N N 5
MRH C8 C7 SING N N 6
MRH O7 C7 DOUB N N 7
MRH C7 N4 SING N N 8
MRH C2 O2 SING N N 9
MRH C2 C3 SING N N 10
MRH C4 N4 SING N N 11
MRH C4 C3 SING N N 12
MRH C3 O3 SING N N 13
MRH C1 O1 SING N N 14
MRH C1 H1 SING N N 15
MRH C5 H5 SING N N 16
MRH C6 H61 SING N N 17
MRH C6 H62 SING N N 18
MRH C6 H5A SING N N 19
MRH C4 H4 SING N N 20
MRH N4 H7 SING N N 21
MRH C8 H8 SING N N 22
MRH C8 H9 SING N N 23
MRH C8 H10 SING N N 24
MRH C3 H3 SING N N 25
MRH O3 HO3 SING N N 26
MRH C2 H2 SING N N 27
MRH O2 HO2 SING N N 28
MRH O1 HO1 SING N N 29
#
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
MRH InChI InChI 1.03 InChI=1S/C8H15NO5/c1-3-5(9-4(2)10)6(11)7(12)8(13)14-3/h3,5-8,11-13H,1-2H3,(H,9,10)/t3-,5-,6+,7+,8+/m1/s1
MRH InChIKey InChI 1.03 LMIZXKMXHCOVTQ-PCRKCNGPSA-N
MRH SMILES_CANONICAL CACTVS 3.385 C[C@H]1O[C@H](O)[C@@H](O)[C@@H](O)[C@@H]1NC(C)=O
MRH SMILES CACTVS 3.385 C[CH]1O[CH](O)[CH](O)[CH](O)[CH]1NC(C)=O
MRH SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 C[C@@H]1[C@H]([C@@H]([C@@H]([C@H](O1)O)O)O)NC(=O)C
MRH SMILES "OpenEye OEToolkits" 2.0.7 CC1C(C(C(C(O1)O)O)O)NC(=O)C
#
_pdbx_chem_comp_identifier.comp_id MRH
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version 2.0.7
_pdbx_chem_comp_identifier.identifier
~{N}-[(2~{R},3~{S},4~{S},5~{S},6~{S})-2-methyl-4,5,6-tris(oxidanyl)oxan-3-yl]ethanamide
#
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
MRH "CARBOHYDRATE ISOMER" D PDB ?
MRH "CARBOHYDRATE RING" pyranose PDB ?
MRH "CARBOHYDRATE ANOMER" alpha PDB ?
MRH "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
MRH 'Create component' 2019-10-21 EBI
MRH 'Initial release' 2020-01-15 RCSB
MRH 'Other modification' 2020-07-03 RCSB
MRH 'Modify name' 2020-07-17 RCSB
MRH 'Modify synonyms' 2020-07-17 RCSB
MRH 'Modify internal type' 2020-07-17 RCSB
MRH 'Modify linking type' 2020-07-17 RCSB
MRH 'Modify atom id' 2020-07-17 RCSB
MRH 'Modify component atom id' 2020-07-17 RCSB
MRH 'Modify leaving atom flag' 2020-07-17 RCSB
#
loop_
_pdbe_chem_comp_synonyms.comp_id
_pdbe_chem_comp_synonyms.name
_pdbe_chem_comp_synonyms.provenance
_pdbe_chem_comp_synonyms.type
MRH alpha-N-Acetylperosamine wwPDB ?
MRH 4-acetamido-4,6-dideoxy-alpha-D-mannose wwPDB ?
MRH 4-acetamido-4,6-dideoxy-D-mannose wwPDB ?
MRH 4-acetamido-4,6-dideoxy-mannose wwPDB ?
#
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
MRH C1 C 9.495 1.268 1
MRH O5 O 8.196 2.018 2
MRH C5 C 6.897 1.268 3
MRH C6 C 5.598 2.018 4
MRH C4 C 6.897 -0.233 5
MRH N4 N 5.598 -0.983 6
MRH C7 C 4.299 -0.233 7
MRH C8 C 4.299 1.268 8
MRH O7 O 3.000 -0.983 9
MRH C3 C 8.196 -0.983 10
MRH O3 O 8.196 -2.482 11
MRH C2 C 9.495 -0.233 12
MRH O2 O 10.794 -0.983 13
MRH O1 O 10.794 2.018 14
#
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
MRH C5 C6 SINGLE BEGINWEDGE 1
MRH O5 C1 SINGLE NONE 2
MRH O5 C5 SINGLE NONE 3
MRH C1 C2 SINGLE NONE 4
MRH C5 C4 SINGLE NONE 5
MRH C8 C7 SINGLE NONE 6
MRH O7 C7 DOUBLE NONE 7
MRH C7 N4 SINGLE NONE 8
MRH C2 O2 SINGLE BEGINWEDGE 9
MRH C2 C3 SINGLE NONE 10
MRH C4 N4 SINGLE BEGINDASH 11
MRH C4 C3 SINGLE NONE 12
MRH C3 O3 SINGLE BEGINWEDGE 13
MRH C1 O1 SINGLE BEGINDASH 14
#
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
MRH MurckoScaffold S1 scaffold C1CCOCC1 InChI=1S/C5H10O/c1-2-4-6-5-3-1/h1-5H2 DHXVGJBLRPWPCS-UHFFFAOYSA-N
MRH amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
MRH 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
MRH C1 S1 1
MRH O5 S1 1
MRH C5 S1 1
MRH C4 S1 1
MRH C3 S1 1
MRH C2 S1 1
MRH N4 F1 1
MRH C7 F1 1
MRH O7 F1 1
MRH C8 F1 1
MRH C4 F2 1
MRH C5 F2 1
MRH O5 F2 1
MRH C1 F2 1
MRH C2 F2 1
MRH C3 F2 1
MRH O1 F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id MRH
_pdbe_chem_comp_rdkit_properties.exactmw 205.095
_pdbe_chem_comp_rdkit_properties.amw 205.210
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 6
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 4
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 6
_pdbe_chem_comp_rdkit_properties.NumHBD 4
_pdbe_chem_comp_rdkit_properties.NumHBA 5
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 14
_pdbe_chem_comp_rdkit_properties.NumAtoms 29
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 6
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.875
_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 5
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 102.888
_pdbe_chem_comp_rdkit_properties.tpsa 99.020
_pdbe_chem_comp_rdkit_properties.CrippenClogP -2.050
_pdbe_chem_comp_rdkit_properties.CrippenMR 46.172
_pdbe_chem_comp_rdkit_properties.chi0v 6.488
_pdbe_chem_comp_rdkit_properties.chi1v 3.172
_pdbe_chem_comp_rdkit_properties.chi2v 1.230
_pdbe_chem_comp_rdkit_properties.chi3v 1.230
_pdbe_chem_comp_rdkit_properties.chi4v 0.694
_pdbe_chem_comp_rdkit_properties.chi0n 21.488
_pdbe_chem_comp_rdkit_properties.chi1n 10.344
_pdbe_chem_comp_rdkit_properties.chi2n 1.230
_pdbe_chem_comp_rdkit_properties.chi3n 1.230
_pdbe_chem_comp_rdkit_properties.chi4n 0.694
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.690
_pdbe_chem_comp_rdkit_properties.kappa1 2.517
_pdbe_chem_comp_rdkit_properties.kappa2 4.223
_pdbe_chem_comp_rdkit_properties.kappa3 2.213
_pdbe_chem_comp_rdkit_properties.Phi 0.759
#
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
MRH UniChem PDBe MRH
MRH UniChem PubChem 90659216
#
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
MRH C1 -2.466 -0.262 -0.274 ETKDGv3 1
MRH O5 -2.009 0.897 0.399 ETKDGv3 2
MRH C5 -0.646 1.194 0.105 ETKDGv3 3
MRH C6 -0.549 2.122 -1.111 ETKDGv3 4
MRH C4 0.259 -0.065 -0.047 ETKDGv3 5
MRH N4 1.622 0.231 0.407 ETKDGv3 6
MRH C7 2.700 0.515 -0.495 ETKDGv3 7
MRH C8 4.037 0.907 0.044 ETKDGv3 8
MRH O7 2.524 0.462 -1.742 ETKDGv3 9
MRH C3 -0.337 -1.215 0.776 ETKDGv3 10
MRH O3 0.488 -2.349 0.679 ETKDGv3 11
MRH C2 -1.772 -1.531 0.289 ETKDGv3 12
MRH O2 -1.733 -2.523 -0.707 ETKDGv3 13
MRH O1 -3.853 -0.362 -0.091 ETKDGv3 14
MRH H1 -2.257 -0.167 -1.367 ETKDGv3 15
MRH H5 -0.268 1.775 0.975 ETKDGv3 16
MRH H61 -0.862 1.600 -2.039 ETKDGv3 17
MRH H62 -1.203 3.007 -0.962 ETKDGv3 18
MRH H5A 0.496 2.477 -1.237 ETKDGv3 19
MRH H4 0.276 -0.393 -1.112 ETKDGv3 20
MRH H7 1.790 0.354 1.432 ETKDGv3 21
MRH H8 4.349 0.187 0.830 ETKDGv3 22
MRH H9 3.974 1.923 0.484 ETKDGv3 23
MRH H10 4.799 0.907 -0.763 ETKDGv3 24
MRH H3 -0.384 -0.886 1.842 ETKDGv3 25
MRH HO3 0.199 -2.972 1.396 ETKDGv3 26
MRH H2 -2.343 -1.909 1.170 ETKDGv3 27
MRH HO2 -2.637 -2.931 -0.743 ETKDGv3 28
MRH HO1 -4.193 -0.991 -0.780 ETKDGv3 29
#