data_8YL
#
_chem_comp.id 8YL
_chem_comp.name
;(2S,3R)-2-[(2S,3R)-1,3-bis(oxidanyl)-1-oxidanylidene-butan-2-yl]-4-[(3S,5S)-5-(dimethylcarbamoyl)pyrrolidin-3-yl]sulfan
yl-3-methyl-2,3-dihydro-1H-pyrrole-5-carboxylic acid
;
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C17 H27 N3 O6 S"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms "Meropenem, hydrolyzed form"
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2017-11-08
_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 401.478
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 8YL
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag Y
_chem_comp.pdbx_ideal_coordinates_details Corina
_chem_comp.pdbx_ideal_coordinates_missing_flag N
_chem_comp.pdbx_model_coordinates_db_code ?
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site PDBJ
# #
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.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
8YL CAA C1 C 0 1 N N N ? ? ? -5.250 1.465 -2.396 CAA 8YL 1
8YL CAU C2 C 0 1 N N R ? ? ? -5.277 0.830 -1.004 CAU 8YL 2
8YL OAJ O1 O 0 1 N N N ? ? ? -5.317 -0.593 -1.130 OAJ 8YL 3
8YL CBA C3 C 0 1 N N S ? ? ? -4.020 1.239 -0.233 CBA 8YL 4
8YL CAQ C4 C 0 1 N N N ? ? ? -4.109 0.726 1.181 CAQ 8YL 5
8YL OAI O2 O 0 1 N N N ? ? ? -4.941 1.312 2.057 OAI 8YL 6
8YL OAF O3 O 0 1 N N N ? ? ? -3.432 -0.213 1.527 OAF 8YL 7
8YL CAZ C5 C 0 1 N N S ? ? ? -2.787 0.643 -0.915 CAZ 8YL 8
8YL CAV C6 C 0 1 N N R ? ? ? -1.501 1.178 -0.261 CAV 8YL 9
8YL CAB C7 C 0 1 N N N ? ? ? -1.842 2.145 0.875 CAB 8YL 10
8YL NAN N1 N 0 1 N N N ? ? ? -2.737 -0.810 -0.703 NAN 8YL 11
8YL CAS C8 C 0 1 N N N ? ? ? -1.564 -1.135 -0.003 CAS 8YL 12
8YL CAP C9 C 0 1 N N N ? ? ? -1.210 -2.455 0.363 CAP 8YL 13
8YL OAH O4 O 0 1 N N N ? ? ? -0.226 -2.653 1.052 OAH 8YL 14
8YL OAE O5 O 0 1 N N N ? ? ? -1.964 -3.496 -0.052 OAE 8YL 15
8YL CAT C10 C 0 1 N N N ? ? ? -0.811 -0.052 0.283 CAT 8YL 16
8YL SAO S1 S 0 1 N N N ? ? ? 0.724 -0.069 1.148 SAO 8YL 17
8YL CG C11 C 0 1 N N S ? ? ? 1.834 0.487 -0.170 CG 8YL 18
8YL CB C12 C 0 1 N N N ? ? ? 3.244 0.810 0.390 CB 8YL 19
8YL CD C13 C 0 1 N N N ? ? ? 2.145 -0.665 -1.157 CD 8YL 20
8YL N N2 N 0 1 N N N ? ? ? 3.446 -0.306 -1.759 N 8YL 21
8YL CA C14 C 0 1 N N S ? ? ? 4.162 0.590 -0.831 CA 8YL 22
8YL C C15 C 0 1 N N N ? ? ? 5.453 -0.051 -0.392 C 8YL 23
8YL O O6 O 0 1 N N N ? ? ? 5.610 -1.247 -0.519 O 8YL 24
8YL NAY N3 N 0 1 N N N ? ? ? 6.434 0.704 0.141 NAY 8YL 25
8YL CAD C16 C 0 1 N N N ? ? ? 7.689 0.081 0.568 CAD 8YL 26
8YL CAC C17 C 0 1 N N N ? ? ? 6.244 2.149 0.294 CAC 8YL 27
8YL H1 H1 H 0 1 N N N ? ? ? -6.146 1.174 -2.945 H1 8YL 28
8YL H2 H2 H 0 1 N N N ? ? ? -5.220 2.550 -2.299 H2 8YL 29
8YL H3 H3 H 0 1 N N N ? ? ? -4.366 1.123 -2.934 H3 8YL 30
8YL H4 H4 H 0 1 N N N ? ? ? -6.161 1.172 -0.465 H4 8YL 31
8YL H5 H5 H 0 1 N N N ? ? ? -4.694 -0.948 -1.779 H5 8YL 32
8YL H6 H6 H 0 1 N N N ? ? ? -3.939 2.326 -0.221 H6 8YL 33
8YL H7 H7 H 0 1 N N N ? ? ? -4.964 0.948 2.952 H7 8YL 34
8YL H8 H8 H 0 1 N N N ? ? ? -2.795 0.871 -1.980 H8 8YL 35
8YL H9 H9 H 0 1 N N N ? ? ? -0.873 1.671 -1.004 H9 8YL 36
8YL H10 H10 H 0 1 N N N ? ? ? -2.311 1.596 1.691 H10 8YL 37
8YL H11 H11 H 0 1 N N N ? ? ? -0.929 2.621 1.234 H11 8YL 38
8YL H12 H12 H 0 1 N N N ? ? ? -2.529 2.908 0.508 H12 8YL 39
8YL H13 H13 H 0 1 N N N ? ? ? -3.408 -1.445 -1.000 H13 8YL 40
8YL H14 H14 H 0 1 N N N ? ? ? -1.644 -4.358 0.247 H14 8YL 41
8YL H15 H15 H 0 1 N N N ? ? ? 1.415 1.347 -0.693 H15 8YL 42
8YL H16 H16 H 0 1 N N N ? ? ? 3.296 1.845 0.730 H16 8YL 43
8YL H17 H17 H 0 1 N N N ? ? ? 3.503 0.127 1.199 H17 8YL 44
8YL H18 H18 H 0 1 N N N ? ? ? 2.222 -1.612 -0.623 H18 8YL 45
8YL H19 H19 H 0 1 N N N ? ? ? 1.373 -0.726 -1.925 H19 8YL 46
8YL H20 H20 H 0 1 N N N ? ? ? 3.320 0.132 -2.659 H20 8YL 47
8YL H22 H22 H 0 1 N N N ? ? ? 4.365 1.543 -1.318 H22 8YL 48
8YL H23 H23 H 0 1 N N N ? ? ? 8.394 0.077 -0.264 H23 8YL 49
8YL H24 H24 H 0 1 N N N ? ? ? 8.111 0.645 1.399 H24 8YL 50
8YL H25 H25 H 0 1 N N N ? ? ? 7.496 -0.944 0.885 H25 8YL 51
8YL H26 H26 H 0 1 N N N ? ? ? 5.257 2.427 -0.075 H26 8YL 52
8YL H27 H27 H 0 1 N N N ? ? ? 6.326 2.416 1.348 H27 8YL 53
8YL H28 H28 H 0 1 N N N ? ? ? 7.008 2.678 -0.275 H28 8YL 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
8YL CAC NAY SING N N 1
8YL CAD NAY SING N N 2
8YL NAY C SING N N 3
8YL C CA SING N N 4
8YL C O DOUB N N 5
8YL CA N SING N N 6
8YL CA CB SING N N 7
8YL N CD SING N N 8
8YL CD CG SING N N 9
8YL CB CG SING N N 10
8YL CG SAO SING N N 11
8YL OAH CAP DOUB N N 12
8YL SAO CAT SING N N 13
8YL OAE CAP SING N N 14
8YL CAP CAS SING N N 15
8YL CAT CAS DOUB N N 16
8YL CAT CAV SING N N 17
8YL CAS NAN SING N N 18
8YL CAV CAB SING N N 19
8YL CAV CAZ SING N N 20
8YL NAN CAZ SING N N 21
8YL CAZ CBA SING N N 22
8YL OAF CAQ DOUB N N 23
8YL CAQ OAI SING N N 24
8YL CAQ CBA SING N N 25
8YL CBA CAU SING N N 26
8YL CAU OAJ SING N N 27
8YL CAU CAA SING N N 28
8YL CAA H1 SING N N 29
8YL CAA H2 SING N N 30
8YL CAA H3 SING N N 31
8YL CAU H4 SING N N 32
8YL OAJ H5 SING N N 33
8YL CBA H6 SING N N 34
8YL OAI H7 SING N N 35
8YL CAZ H8 SING N N 36
8YL CAV H9 SING N N 37
8YL CAB H10 SING N N 38
8YL CAB H11 SING N N 39
8YL CAB H12 SING N N 40
8YL NAN H13 SING N N 41
8YL OAE H14 SING N N 42
8YL CG H15 SING N N 43
8YL CB H16 SING N N 44
8YL CB H17 SING N N 45
8YL CD H18 SING N N 46
8YL CD H19 SING N N 47
8YL N H20 SING N N 48
8YL CA H22 SING N N 49
8YL CAD H23 SING N N 50
8YL CAD H24 SING N N 51
8YL CAD H25 SING N N 52
8YL CAC H26 SING N N 53
8YL CAC H27 SING N N 54
8YL CAC H28 SING N N 55
# #
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
8YL InChI InChI 1.03 "InChI=1S/C17H27N3O6S/c1-7-12(11(8(2)21)16(23)24)19-13(17(25)26)14(7)27-9-5-10(18-6-9)15(22)20(3)4/h7-12,18-19,21H,5-6H2,1-4H3,(H,23,24)(H,25,26)/t7-,8-,9+,10+,11-,12-/m1/s1"
8YL InChIKey InChI 1.03 ILVWWUFTACAPIZ-PQTSNVLCSA-N
8YL SMILES_CANONICAL CACTVS 3.385 "C[C@@H](O)[C@H]([C@@H]1NC(=C(S[C@@H]2CN[C@@H](C2)C(=O)N(C)C)[C@@H]1C)C(O)=O)C(O)=O"
8YL SMILES CACTVS 3.385 "C[CH](O)[CH]([CH]1NC(=C(S[CH]2CN[CH](C2)C(=O)N(C)C)[CH]1C)C(O)=O)C(O)=O"
8YL SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "C[C@@H]1[C@@H](NC(=C1S[C@H]2C[C@H](NC2)C(=O)N(C)C)C(=O)O)[C@@H]([C@@H](C)O)C(=O)O"
8YL SMILES "OpenEye OEToolkits" 2.0.6 "CC1C(NC(=C1SC2CC(NC2)C(=O)N(C)C)C(=O)O)C(C(C)O)C(=O)O"
#
_pdbx_chem_comp_identifier.comp_id 8YL
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version 2.0.6
_pdbx_chem_comp_identifier.identifier "(2~{S},3~{R})-2-[(2~{S},3~{R})-1,3-bis(oxidanyl)-1-oxidanylidene-butan-2-yl]-4-[(3~{S},5~{S})-5-(dimethylcarbamoyl)pyrrolidin-3-yl]sulfanyl-3-methyl-2,3-dihydro-1~{H}-pyrrole-5-carboxylic 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
8YL "Create component" 2017-11-08 PDBJ
8YL "Initial release" 2017-12-13 RCSB
8YL "Modify synonyms" 2020-06-05 PDBE
#
_pdbx_chem_comp_synonyms.ordinal 1
_pdbx_chem_comp_synonyms.comp_id 8YL
_pdbx_chem_comp_synonyms.name "Meropenem, hydrolyzed form"
_pdbx_chem_comp_synonyms.provenance ?
_pdbx_chem_comp_synonyms.type ?
##