data_57S
#
_chem_comp.id 57S
_chem_comp.name 4-O-[2-acetamido-2-deoxy-beta-D-glucopyranosyl]-5-O-phosphono-D-ribitol
_chem_comp.type D-saccharide
_chem_comp.pdbx_type ATOMS
_chem_comp.formula "C13 H26 N O13 P"
_chem_comp.mon_nstd_parent_comp_id NAG
_chem_comp.pdbx_synonyms
;4-O-[2-(acetylamino)-2-deoxy-beta-D-glucopyranosyl]-5-O-phosphono-D-ribitol;
4-O-[2-acetamido-2-deoxy-beta-D-glucosyl]-5-O-phosphono-D-ribitol;
4-O-[2-acetamido-2-deoxy-D-glucosyl]-5-O-phosphono-D-ribitol; 4-O-[2-acetamido-2-deoxy-glucosyl]-5-O-phosphono-D-ribitol
;
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2015-08-12
_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 435.318
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 57S
_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 5D6C
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site RCSB
#
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 57S 4-O-[2-(acetylamino)-2-deoxy-beta-D-glucopyranosyl]-5-O-phosphono-D-ribitol PDB ?
2 57S 4-O-[2-acetamido-2-deoxy-beta-D-glucosyl]-5-O-phosphono-D-ribitol PDB ?
3 57S 4-O-[2-acetamido-2-deoxy-D-glucosyl]-5-O-phosphono-D-ribitol PDB ?
4 57S 4-O-[2-acetamido-2-deoxy-glucosyl]-5-O-phosphono-D-ribitol 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
57S C1 C14 C 0 1 N N S N N N -3.733 19.682 -19.336 -1.207 0.436 0.326 C1 57S 1
57S C2 C5 C 0 1 N N R N N N -3.776 18.146 -19.264 -1.812 1.407 -0.691 C2 57S 2
57S C5 C11 C 0 1 N N R N N N -1.504 19.823 -18.317 -3.362 -0.038 1.267 C5 57S 3
57S C3 C7 C 0 1 N N R N N N -2.789 17.630 -18.191 -3.079 2.031 -0.099 C3 57S 4
57S C4 C9 C 0 1 N N S N N N -1.392 18.285 -18.312 -4.053 0.914 0.288 C4 57S 5
57S C8 C1 C 0 1 N N N N N N -7.502 17.111 -19.506 1.095 3.347 -2.254 C8 57S 6
57S C7 C2 C 0 1 N N N N N N -6.083 17.380 -19.924 0.098 2.262 -1.941 C7 57S 7
57S O7 O3 O 0 1 N N N N N N -5.786 17.194 -21.087 0.141 1.207 -2.538 O7 57S 8
57S N2 N4 N 0 1 N N N N N N -5.182 17.786 -18.984 -0.842 2.462 -0.996 N2 57S 9
57S O5 O13 O 0 1 N N N N N N -2.401 20.207 -19.372 -2.175 -0.560 0.666 O5 57S 10
57S O1 O16 O 0 1 N N N N N N -4.459 20.113 -20.493 -0.056 -0.193 -0.240 O1 57S 11
57S C17 C17 C 0 1 N N R N N N -5.068 21.395 -20.319 0.652 -1.038 0.669 C17 57S 12
57S C19 C19 C 0 1 N N N N N N -6.357 21.234 -19.499 1.717 -0.219 1.402 C19 57S 13
57S O20 O20 O 0 1 N N N N N N -7.358 20.478 -20.170 2.697 0.234 0.466 O20 57S 14
57S P21 P21 P 0 1 N N N N N N -8.910 20.780 -19.884 3.968 1.127 0.891 P21 57S 15
57S O22 O22 O 0 1 N N N N N N -9.237 20.434 -18.482 4.928 0.268 1.857 O22 57S 16
57S O23 O23 O 0 1 N N N N N N -9.188 22.352 -20.122 4.783 1.562 -0.428 O23 57S 17
57S O24 O24 O 0 1 N N N N N N -9.806 19.909 -20.895 3.504 2.337 1.606 O24 57S 18
57S C25 C25 C 0 1 N N S N N N -5.270 22.182 -21.634 1.325 -2.172 -0.107 C25 57S 19
57S C27 C27 C 0 1 N N S N N N -4.088 22.274 -22.641 0.260 -2.990 -0.840 C27 57S 20
57S C29 C29 C 0 1 N N N N N N -2.663 22.228 -22.067 0.933 -4.124 -1.616 C29 57S 21
57S O30 O30 O 0 1 N N N N N N -1.711 22.531 -23.093 -0.067 -4.957 -2.206 O30 57S 22
57S O31 O31 O 0 1 N N N N N N -4.211 23.479 -23.412 -0.448 -2.145 -1.750 O31 57S 23
57S O32 O32 O 0 1 N N N N N N -5.711 23.499 -21.275 2.033 -3.017 0.802 O32 57S 24
57S C6 C33 C 0 1 N N N N N N -0.140 20.465 -18.607 -4.308 -1.190 1.612 C6 57S 25
57S O6 O34 O 0 1 N N N N N N -0.323 21.850 -18.934 -3.709 -2.015 2.613 O6 57S 26
57S O4 O35 O 0 1 N N N N N N -0.516 17.860 -17.262 -5.208 1.481 0.908 O4 57S 27
57S O3 O36 O 0 1 N N N N N N -2.644 16.231 -18.425 -3.689 2.886 -1.068 O3 57S 28
57S H1 H1 H 0 1 N N N N N N -4.239 20.067 -18.439 -0.918 0.983 1.224 H1 57S 29
57S H2 H2 H 0 1 N N N N N N -3.479 17.737 -20.241 -2.063 0.868 -1.605 H2 57S 30
57S H5 H3 H 0 1 N N N N N N -1.874 20.168 -17.340 -3.101 0.502 2.177 H5 57S 31
57S H3 H4 H 0 1 N N N N N N -3.200 17.826 -17.190 -2.820 2.612 0.787 H3 57S 32
57S H4 H5 H 0 1 N N N N N N -0.966 17.980 -19.279 -4.350 0.365 -0.606 H4 57S 33
57S H81 H6 H 0 1 N N N N N N -8.082 16.767 -20.375 0.900 4.213 -1.621 H81 57S 34
57S H82 H7 H 0 1 N N N N N N -7.514 16.335 -18.727 2.103 2.979 -2.066 H82 57S 35
57S H83 H8 H 0 1 N N N N N N -7.949 18.035 -19.110 1.002 3.634 -3.301 H83 57S 36
57S HN2 H9 H 0 1 N N N N N N -5.495 17.844 -18.036 -0.877 3.306 -0.518 HN2 57S 37
57S H10 H10 H 0 1 N N N N N N -4.387 22.001 -19.703 -0.046 -1.457 1.393 H10 57S 38
57S H11 H11 H 0 1 N N N N N N -6.110 20.726 -18.555 1.248 0.640 1.882 H11 57S 39
57S H12 H12 H 0 1 N N N N N N -6.761 22.234 -19.283 2.196 -0.841 2.158 H12 57S 40
57S H13 H13 H 0 1 N N N N N N -9.912 19.766 -18.469 5.270 -0.541 1.452 H13 57S 41
57S H14 H14 H 0 1 N N N N N N -9.829 22.459 -20.815 5.563 2.103 -0.247 H14 57S 42
57S H15 H15 H 0 1 N N N N N N -6.094 21.687 -22.169 2.023 -1.752 -0.831 H15 57S 43
57S H16 H16 H 0 1 N N N N N N -4.186 21.418 -23.324 -0.438 -3.410 -0.116 H16 57S 44
57S H17 H17 H 0 1 N N N N N N -2.463 21.222 -21.670 1.564 -3.704 -2.400 H17 57S 45
57S H18 H18 H 0 1 N N N N N N -2.573 22.967 -21.257 1.545 -4.716 -0.936 H18 57S 46
57S H19 H19 H 0 1 N N N N N N -0.833 22.501 -22.730 0.288 -5.698 -2.714 H19 57S 47
57S H20 H20 H 0 1 N N N N N N -5.085 23.533 -23.779 0.112 -1.736 -2.424 H20 57S 48
57S H21 H21 H 0 1 N N N N N N -6.432 23.435 -20.660 1.473 -3.425 1.476 H21 57S 49
57S H61 H22 H 0 1 N N N N N N 0.336 19.948 -19.453 -5.249 -0.788 1.987 H61 57S 50
57S H62 H23 H 0 1 N N N N N N 0.502 20.380 -17.718 -4.498 -1.784 0.718 H62 57S 51
57S HO6 H24 H 0 1 N Y N N N N 0.521 22.248 -19.114 -4.254 -2.767 2.881 HO6 57S 52
57S HO4 H25 H 0 1 N Y N N N N -0.453 16.912 -17.266 -5.867 0.829 1.183 HO4 57S 53
57S HO3 H26 H 0 1 N Y N N N N -2.043 15.863 -17.788 -4.498 3.315 -0.760 HO3 57S 54
#
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
57S O31 C27 SING N N 1
57S O30 C29 SING N N 2
57S C27 C29 SING N N 3
57S C27 C25 SING N N 4
57S C25 O32 SING N N 5
57S C25 C17 SING N N 6
57S O7 C7 DOUB N N 7
57S O24 P21 DOUB N N 8
57S O1 C17 SING N N 9
57S O1 C1 SING N N 10
57S C17 C19 SING N N 11
57S O20 P21 SING N N 12
57S O20 C19 SING N N 13
57S O23 P21 SING N N 14
57S C7 C8 SING N N 15
57S C7 N2 SING N N 16
57S P21 O22 SING N N 17
57S O5 C1 SING N N 18
57S O5 C5 SING N N 19
57S C1 C2 SING N N 20
57S C2 N2 SING N N 21
57S C2 C3 SING N N 22
57S O6 C6 SING N N 23
57S C6 C5 SING N N 24
57S O3 C3 SING N N 25
57S C5 C4 SING N N 26
57S C4 C3 SING N N 27
57S C4 O4 SING N N 28
57S C1 H1 SING N N 29
57S C2 H2 SING N N 30
57S C5 H5 SING N N 31
57S C3 H3 SING N N 32
57S C4 H4 SING N N 33
57S C8 H81 SING N N 34
57S C8 H82 SING N N 35
57S C8 H83 SING N N 36
57S N2 HN2 SING N N 37
57S C17 H10 SING N N 38
57S C19 H11 SING N N 39
57S C19 H12 SING N N 40
57S O22 H13 SING N N 41
57S O23 H14 SING N N 42
57S C25 H15 SING N N 43
57S C27 H16 SING N N 44
57S C29 H17 SING N N 45
57S C29 H18 SING N N 46
57S O30 H19 SING N N 47
57S O31 H20 SING N N 48
57S O32 H21 SING N N 49
57S C6 H61 SING N N 50
57S C6 H62 SING N N 51
57S O6 HO6 SING N N 52
57S O4 HO4 SING N N 53
57S O3 HO3 SING N N 54
#
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
57S SMILES ACDLabs 12.01 C1(C(NC(C)=O)C(C(C(O1)CO)O)O)OC(COP(O)(O)=O)C(O)C(CO)O
57S InChI InChI 1.03 InChI=1S/C13H26NO13P/c1-5(17)14-9-12(21)11(20)7(3-16)26-13(9)27-8(4-25-28(22,23)24)10(19)6(18)2-15/h6-13,15-16,18-21H,2-4H2,1H3,(H,14,17)(H2,22,23,24)/t6-,7+,8+,9+,10-,11+,12+,13-/m0/s1
57S InChIKey InChI 1.03 VRKCYAMLHZHZPR-BXGOZMQFSA-N
57S SMILES_CANONICAL CACTVS 3.385 CC(=O)N[C@@H]1[C@@H](O)[C@H](O)[C@@H](CO)O[C@H]1O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@@H](O)CO
57S SMILES CACTVS 3.385 CC(=O)N[CH]1[CH](O)[CH](O)[CH](CO)O[CH]1O[CH](CO[P](O)(O)=O)[CH](O)[CH](O)CO
57S SMILES_CANONICAL "OpenEye OEToolkits" 1.9.2 CC(=O)N[C@@H]1[C@H]([C@@H]([C@H](O[C@H]1O[C@H](COP(=O)(O)O)[C@H]([C@H](CO)O)O)CO)O)O
57S SMILES "OpenEye OEToolkits" 1.9.2 CC(=O)NC1C(C(C(OC1OC(COP(=O)(O)O)C(C(CO)O)O)CO)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
57S "SYSTEMATIC NAME" ACDLabs 12.01 4-O-[2-(acetylamino)-2-deoxy-beta-D-glucopyranosyl]-5-O-phosphono-D-ribitol
57S "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.9.2
;[(2R,3S,4S)-2-[(2S,3R,4R,5S,6R)-3-acetamido-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxan-2-yl]oxy-3,4,5-tris(oxidanyl)pentyl
] dihydrogen phosphate
;
#
_pdbx_chem_comp_related.comp_id 57S
_pdbx_chem_comp_related.related_comp_id NAG
_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 57S C8 NAG C8 "Carbohydrate core"
2 57S C5 NAG C5 "Carbohydrate core"
3 57S C1 NAG C1 "Carbohydrate core"
4 57S C7 NAG C7 "Carbohydrate core"
5 57S C6 NAG C6 "Carbohydrate core"
6 57S C2 NAG C2 "Carbohydrate core"
7 57S C3 NAG C3 "Carbohydrate core"
8 57S C4 NAG C4 "Carbohydrate core"
9 57S N2 NAG N2 "Carbohydrate core"
10 57S O5 NAG O5 "Carbohydrate core"
11 57S O1 NAG O1 "Carbohydrate core"
12 57S O7 NAG O7 "Carbohydrate core"
13 57S O6 NAG O6 "Carbohydrate core"
14 57S O4 NAG O4 "Carbohydrate core"
15 57S O3 NAG O3 "Carbohydrate core"
16 57S H1 NAG H1 "Carbohydrate core"
17 57S H2 NAG H2 "Carbohydrate core"
18 57S H61 NAG H61 "Carbohydrate core"
19 57S H62 NAG H62 "Carbohydrate core"
20 57S HO6 NAG HO6 "Carbohydrate core"
21 57S HO4 NAG HO4 "Carbohydrate core"
22 57S HO3 NAG HO3 "Carbohydrate core"
23 57S H5 NAG H5 "Carbohydrate core"
24 57S H3 NAG H3 "Carbohydrate core"
25 57S H4 NAG H4 "Carbohydrate core"
26 57S H81 NAG H81 "Carbohydrate core"
27 57S H82 NAG H82 "Carbohydrate core"
28 57S H83 NAG H83 "Carbohydrate core"
29 57S HN2 NAG HN2 "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
57S "CARBOHYDRATE ISOMER" D PDB ?
57S "CARBOHYDRATE RING" pyranose PDB ?
57S "CARBOHYDRATE ANOMER" beta PDB ?
57S "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
57S 'Create component' 2015-08-12 RCSB
57S 'Initial release' 2015-11-11 RCSB
57S 'Other modification' 2020-07-03 RCSB
57S 'Modify parent residue' 2020-07-17 RCSB
57S 'Modify name' 2020-07-17 RCSB
57S 'Modify synonyms' 2020-07-17 RCSB
57S 'Modify internal type' 2020-07-17 RCSB
57S 'Modify linking type' 2020-07-17 RCSB
57S 'Modify atom id' 2020-07-17 RCSB
57S 'Modify component atom id' 2020-07-17 RCSB
57S '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
57S '4-O-[2-(acetylamino)-2-deoxy-beta-D-glucopyranosyl]-5-O-phosphono-D-ribitol' wwPDB ?
57S '4-O-[2-acetamido-2-deoxy-beta-D-glucosyl]-5-O-phosphono-D-ribitol' wwPDB ?
57S '4-O-[2-acetamido-2-deoxy-D-glucosyl]-5-O-phosphono-D-ribitol' wwPDB ?
57S '4-O-[2-acetamido-2-deoxy-glucosyl]-5-O-phosphono-D-ribitol' 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
57S C1 C 7.702 -1.570 1
57S C2 C 7.702 -3.070 2
57S C5 C 5.104 -1.570 3
57S C3 C 6.404 -3.820 4
57S C4 C 5.104 -3.070 5
57S C8 C 11.600 -3.820 6
57S C7 C 10.301 -3.070 7
57S O7 O 10.301 -1.570 8
57S N2 N 9.002 -3.820 9
57S O5 O 6.404 -0.820 10
57S O1 O 9.002 -0.820 11
57S C17 C 9.002 0.680 12
57S C19 C 7.702 1.430 13
57S O20 O 7.702 2.930 14
57S P21 P 6.404 3.680 15
57S O22 O 5.654 2.381 16
57S O23 O 7.154 4.979 17
57S O24 O 5.104 4.430 18
57S C25 C 10.301 1.430 19
57S C27 C 10.301 2.930 20
57S C29 C 11.600 3.680 21
57S O30 O 11.600 5.180 22
57S O31 O 9.002 3.680 23
57S O32 O 11.600 0.680 24
57S C6 C 3.805 -0.820 25
57S O6 O 3.805 0.680 26
57S O4 O 3.805 -3.820 27
57S O3 O 6.404 -5.320 28
#
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
57S C27 O31 SINGLE BEGINWEDGE 1
57S O30 C29 SINGLE NONE 2
57S C27 C29 SINGLE NONE 3
57S C27 C25 SINGLE NONE 4
57S C25 O32 SINGLE BEGINDASH 5
57S C25 C17 SINGLE NONE 6
57S O7 C7 DOUBLE NONE 7
57S O24 P21 DOUBLE NONE 8
57S O1 C17 SINGLE NONE 9
57S C1 O1 SINGLE BEGINWEDGE 10
57S C17 C19 SINGLE BEGINDASH 11
57S O20 P21 SINGLE NONE 12
57S O20 C19 SINGLE NONE 13
57S O23 P21 SINGLE NONE 14
57S C7 C8 SINGLE NONE 15
57S C7 N2 SINGLE NONE 16
57S P21 O22 SINGLE NONE 17
57S O5 C1 SINGLE NONE 18
57S O5 C5 SINGLE NONE 19
57S C1 C2 SINGLE NONE 20
57S C2 N2 SINGLE BEGINDASH 21
57S C2 C3 SINGLE NONE 22
57S O6 C6 SINGLE NONE 23
57S C5 C6 SINGLE BEGINWEDGE 24
57S C3 O3 SINGLE BEGINWEDGE 25
57S C5 C4 SINGLE NONE 26
57S C4 C3 SINGLE NONE 27
57S C4 O4 SINGLE BEGINDASH 28
#
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
57S MurckoScaffold S1 scaffold C1CCOCC1 InChI=1S/C5H10O/c1-2-4-6-5-3-1/h1-5H2 DHXVGJBLRPWPCS-UHFFFAOYSA-N
57S amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
57S phosphate F2 fragment O=P(O)(O)O InChI=1S/H3O4P/c1-5(2,3)4/h(H3,1,2,3,4) NBIIXXVUZAFLBC-UHFFFAOYSA-N
57S pyranose F3 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
57S C1 S1 1
57S C2 S1 1
57S C5 S1 1
57S C3 S1 1
57S C4 S1 1
57S O5 S1 1
57S N2 F1 1
57S C7 F1 1
57S O7 F1 1
57S C8 F1 1
57S O20 F2 1
57S P21 F2 1
57S O24 F2 1
57S O23 F2 1
57S O22 F2 1
57S C4 F3 1
57S C5 F3 1
57S O5 F3 1
57S C1 F3 1
57S C2 F3 1
57S C3 F3 1
57S O1 F3 1
#
_pdbe_chem_comp_rdkit_properties.comp_id 57S
_pdbe_chem_comp_rdkit_properties.exactmw 435.114
_pdbe_chem_comp_rdkit_properties.amw 435.319
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 14
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 9
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 19
_pdbe_chem_comp_rdkit_properties.NumHBD 9
_pdbe_chem_comp_rdkit_properties.NumHBA 13
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 28
_pdbe_chem_comp_rdkit_properties.NumAtoms 54
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 15
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.923
_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 8
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 196.349
_pdbe_chem_comp_rdkit_properties.tpsa 235.700
_pdbe_chem_comp_rdkit_properties.CrippenClogP -4.861
_pdbe_chem_comp_rdkit_properties.CrippenMR 87.334
_pdbe_chem_comp_rdkit_properties.chi0v 13.596
_pdbe_chem_comp_rdkit_properties.chi1v 7.588
_pdbe_chem_comp_rdkit_properties.chi2v 2.587
_pdbe_chem_comp_rdkit_properties.chi3v 2.587
_pdbe_chem_comp_rdkit_properties.chi4v 1.473
_pdbe_chem_comp_rdkit_properties.chi0n 38.702
_pdbe_chem_comp_rdkit_properties.chi1n 18.340
_pdbe_chem_comp_rdkit_properties.chi2n 2.272
_pdbe_chem_comp_rdkit_properties.chi3n 2.272
_pdbe_chem_comp_rdkit_properties.chi4n 1.278
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.740
_pdbe_chem_comp_rdkit_properties.kappa1 6.627
_pdbe_chem_comp_rdkit_properties.kappa2 10.871
_pdbe_chem_comp_rdkit_properties.kappa3 7.257
_pdbe_chem_comp_rdkit_properties.Phi 2.573
#
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
57S UniChem PDBe 57S
57S UniChem ChEBI 90525
57S UniChem ZINC ZINC000263614816
57S UniChem PubChem 92044073
#
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
57S C1 -0.682 -0.197 0.410 ETKDGv3 1
57S C2 -2.074 0.198 -0.117 ETKDGv3 2
57S C5 -1.515 -1.932 1.728 ETKDGv3 3
57S C3 -3.156 -0.202 0.906 ETKDGv3 4
57S C4 -2.982 -1.677 1.313 ETKDGv3 5
57S C8 -1.726 3.708 -1.782 ETKDGv3 6
57S C7 -1.791 2.224 -1.633 ETKDGv3 7
57S O7 -1.594 1.491 -2.639 ETKDGv3 8
57S N2 -2.118 1.644 -0.362 ETKDGv3 9
57S O5 -0.637 -1.589 0.671 ETKDGv3 10
57S O1 0.272 0.104 -0.590 ETKDGv3 11
57S C17 1.579 0.223 -0.050 ETKDGv3 12
57S C19 1.899 1.717 0.135 ETKDGv3 13
57S O20 1.733 2.395 -1.089 ETKDGv3 14
57S P21 2.133 4.038 -0.867 ETKDGv3 15
57S O22 1.235 4.708 0.407 ETKDGv3 16
57S O23 3.794 4.199 -0.569 ETKDGv3 17
57S O24 1.798 4.787 -2.135 ETKDGv3 18
57S C25 2.587 -0.454 -1.012 ETKDGv3 19
57S C27 2.254 -1.949 -1.279 ETKDGv3 20
57S C29 2.493 -2.845 -0.049 ETKDGv3 21
57S O30 2.175 -4.177 -0.349 ETKDGv3 22
57S O31 3.046 -2.423 -2.338 ETKDGv3 23
57S O32 3.890 -0.331 -0.497 ETKDGv3 24
57S C6 -1.280 -3.403 2.094 ETKDGv3 25
57S O6 -1.504 -4.226 0.982 ETKDGv3 26
57S O4 -3.836 -1.974 2.389 ETKDGv3 27
57S O3 -4.432 -0.023 0.349 ETKDGv3 28
57S H1 -0.483 0.394 1.340 ETKDGv3 29
57S H2 -2.270 -0.356 -1.063 ETKDGv3 30
57S H5 -1.278 -1.333 2.639 ETKDGv3 31
57S H3 -3.049 0.425 1.825 ETKDGv3 32
57S H4 -3.226 -2.326 0.438 ETKDGv3 33
57S H81 -1.114 3.981 -2.667 ETKDGv3 34
57S H82 -1.265 4.161 -0.880 ETKDGv3 35
57S H83 -2.752 4.112 -1.909 ETKDGv3 36
57S HN2 -2.233 2.285 0.456 ETKDGv3 37
57S H10 1.689 -0.263 0.948 ETKDGv3 38
57S H11 2.939 1.820 0.516 ETKDGv3 39
57S H12 1.198 2.121 0.898 ETKDGv3 40
57S H13 1.741 4.490 1.229 ETKDGv3 41
57S H14 3.908 4.020 0.398 ETKDGv3 42
57S H15 2.524 0.084 -1.988 ETKDGv3 43
57S H16 1.180 -2.041 -1.563 ETKDGv3 44
57S H17 3.563 -2.800 0.246 ETKDGv3 45
57S H18 1.890 -2.507 0.821 ETKDGv3 46
57S H19 1.184 -4.240 -0.349 ETKDGv3 47
57S H20 2.656 -2.060 -3.176 ETKDGv3 48
57S H21 4.515 -0.443 -1.260 ETKDGv3 49
57S H61 -1.952 -3.701 2.929 ETKDGv3 50
57S H62 -0.227 -3.523 2.437 ETKDGv3 51
57S HO6 -1.318 -5.153 1.283 ETKDGv3 52
57S HO4 -4.739 -2.127 2.006 ETKDGv3 53
57S HO3 -4.645 0.945 0.420 ETKDGv3 54
#