data_IM2
#
_chem_comp.id IM2
_chem_comp.name
;(5R)-5-[(1S,2R)-1-formyl-2-hydroxypropyl]-3-[(2-{[(E)-iminomethyl]amino}ethyl)sulfanyl]-4,5-dihydro-1H-pyrrole-2-carbox
ylic acid
;
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C12 H19 N3 O4 S"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms "IMIPENEM, open form; N-FORMIMIDOYL-THIENAMYCINE, open form"
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 1999-07-13
_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 301.362
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code IM2
_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 1BT5
_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
IM2 C7 C7 C 0 1 N N N N N N 9.550 8.105 36.846 -1.670 1.773 0.978 C7 IM2 1
IM2 C2 C2 C 0 1 N N N N N N 11.375 12.047 35.208 -0.053 -0.664 -0.853 C2 IM2 2
IM2 C6 C6 C 0 1 N N S N N N 10.817 8.925 36.995 -2.581 1.667 -0.218 C6 IM2 3
IM2 C5 C5 C 0 1 N N R N N N 10.461 10.388 36.570 -2.183 0.451 -1.056 C5 IM2 4
IM2 C3 C3 C 0 1 N N N N N N 10.455 11.398 34.501 -0.987 -1.362 -0.180 C3 IM2 5
IM2 O7 O7 O 0 1 N N N N N N 8.445 8.626 37.017 -0.992 2.760 1.135 O7 IM2 6
IM2 C61 C61 C 0 1 N N R N N N 11.440 8.881 38.392 -4.027 1.509 0.256 C61 IM2 7
IM2 O62 O62 O 0 1 N N N N N N 11.708 7.554 38.873 -4.142 0.325 1.049 O62 IM2 8
IM2 C62 C62 C 0 1 N N N N N N 10.520 9.614 39.437 -4.953 1.401 -0.958 C62 IM2 9
IM2 N4 N4 N 0 1 N N N N N N 10.074 10.188 35.164 -2.260 -0.774 -0.250 N4 IM2 10
IM2 C31 C31 C 0 1 N N N N N N 9.799 11.797 33.240 -0.715 -2.559 0.523 C31 IM2 11
IM2 O31 O31 O 0 1 N N N N N N 9.167 10.849 32.545 0.431 -2.960 0.621 O31 IM2 12
IM2 O32 O32 O 0 1 N N N N N N 9.851 12.963 32.892 -1.725 -3.257 1.084 O32 IM2 13
IM2 S21 S21 S 0 1 N N N N N N 12.055 13.608 34.738 1.650 -1.094 -0.987 S21 IM2 14
IM2 C22 C22 C 0 1 N N N N N N 13.214 13.842 36.128 2.396 0.292 -0.093 C22 IM2 15
IM2 C23 C23 C 0 1 N N N N N N 14.593 13.186 35.847 3.920 0.195 -0.182 C23 IM2 16
IM2 N24 N24 N 0 1 N N N N N N 15.095 13.500 34.499 4.524 1.317 0.542 N24 IM2 17
IM2 C25 C25 C 0 1 N N N N N N 15.742 12.504 33.894 5.887 1.441 0.600 C25 IM2 18
IM2 N26 N26 N 0 1 N N N N N N 16.632 11.793 34.420 6.641 0.567 0.016 N26 IM2 19
IM2 C1 C1 C 0 1 N N N N N N 11.708 11.306 36.519 -0.706 0.546 -1.481 C1 IM2 20
IM2 H71 H71 H 0 1 N N N N N N 9.616 7.058 36.589 -1.626 0.968 1.696 H71 IM2 21
IM2 H61A H61A H 0 0 N N N N N N 11.560 8.542 36.279 -2.494 2.570 -0.822 H61A IM2 22
IM2 H51 H51 H 0 1 N N N N N N 9.657 10.813 37.189 -2.824 0.370 -1.934 H51 IM2 23
IM2 H61 H61 H 0 1 N N N N N N 12.387 9.439 38.350 -4.311 2.375 0.854 H61 IM2 24
IM2 HO6 HO6 H 0 1 N N N N N N 12.092 7.603 39.741 -5.034 0.161 1.383 HO6 IM2 25
IM2 H621 H621 H 0 0 N N N N N N 10.987 9.570 40.432 -4.669 0.535 -1.555 H621 IM2 26
IM2 H622 H622 H 0 0 N N N N N N 10.392 10.665 39.139 -5.983 1.288 -0.620 H622 IM2 27
IM2 H623 H623 H 0 0 N N N N N N 9.538 9.120 39.471 -4.865 2.304 -1.562 H623 IM2 28
IM2 H41 H41 H 0 1 N N N N N N 10.559 9.405 34.774 -3.063 -1.120 0.170 H41 IM2 29
IM2 H321 H321 H 0 0 N N N N N N 9.381 13.071 32.073 -1.441 -4.060 1.542 H321 IM2 30
IM2 H221 H221 H 0 0 N N N N N N 13.360 14.920 36.292 2.065 1.231 -0.537 H221 IM2 31
IM2 H222 H222 H 0 0 N N N N N N 12.782 13.388 37.032 2.090 0.257 0.952 H222 IM2 32
IM2 H231 H231 H 0 0 N N N N N N 15.317 13.553 36.589 4.251 -0.744 0.262 H231 IM2 33
IM2 H232 H232 H 0 0 N N N N N N 14.492 12.095 35.942 4.227 0.230 -1.227 H232 IM2 34
IM2 H241 H241 H 0 0 N N N N N N 14.961 14.393 34.070 3.958 1.972 0.979 H241 IM2 35
IM2 H25 H25 H 0 1 N N N N N N 15.479 12.292 32.868 6.332 2.268 1.133 H25 IM2 36
IM2 H26 H26 H 0 1 N N N N N N 16.984 11.104 33.787 7.606 0.654 0.058 H26 IM2 37
IM2 H11 H11 H 0 1 N N N N N N 12.644 10.733 36.448 -0.263 1.462 -1.092 H11 IM2 38
IM2 H12 H12 H 0 1 N N N N N N 11.760 11.987 37.381 -0.613 0.508 -2.566 H12 IM2 39
#
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
IM2 C7 C6 SING N N 1
IM2 C7 O7 DOUB N N 2
IM2 C7 H71 SING N N 3
IM2 C2 C3 DOUB N N 4
IM2 C2 S21 SING N N 5
IM2 C2 C1 SING N N 6
IM2 C6 C5 SING N N 7
IM2 C6 C61 SING N N 8
IM2 C6 H61A SING N N 9
IM2 C5 N4 SING N N 10
IM2 C5 C1 SING N N 11
IM2 C5 H51 SING N N 12
IM2 C3 N4 SING N N 13
IM2 C3 C31 SING N N 14
IM2 C61 O62 SING N N 15
IM2 C61 C62 SING N N 16
IM2 C61 H61 SING N N 17
IM2 O62 HO6 SING N N 18
IM2 C62 H621 SING N N 19
IM2 C62 H622 SING N N 20
IM2 C62 H623 SING N N 21
IM2 N4 H41 SING N N 22
IM2 C31 O31 DOUB N N 23
IM2 C31 O32 SING N N 24
IM2 O32 H321 SING N N 25
IM2 S21 C22 SING N N 26
IM2 C22 C23 SING N N 27
IM2 C22 H221 SING N N 28
IM2 C22 H222 SING N N 29
IM2 C23 N24 SING N N 30
IM2 C23 H231 SING N N 31
IM2 C23 H232 SING N N 32
IM2 N24 C25 SING N N 33
IM2 N24 H241 SING N N 34
IM2 C25 N26 DOUB N N 35
IM2 C25 H25 SING N N 36
IM2 N26 H26 SING N N 37
IM2 C1 H11 SING N N 38
IM2 C1 H12 SING N N 39
#
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
IM2 SMILES ACDLabs 12.01 "O=C(O)C1=C(SCCNC=[N@H])CC(N1)C(C=O)C(O)C"
IM2 InChI InChI 1.03 "InChI=1S/C12H19N3O4S/c1-7(17)8(5-16)9-4-10(11(15-9)12(18)19)20-3-2-14-6-13/h5-9,15,17H,2-4H2,1H3,(H2,13,14)(H,18,19)/t7-,8-,9-/m1/s1"
IM2 InChIKey InChI 1.03 UACUABDJLSUFFC-IWSPIJDZSA-N
IM2 SMILES_CANONICAL CACTVS 3.370 "C[C@@H](O)[C@@H](C=O)[C@H]1CC(=C(N1)C(O)=O)SCCNC=N"
IM2 SMILES CACTVS 3.370 "C[CH](O)[CH](C=O)[CH]1CC(=C(N1)C(O)=O)SCCNC=N"
IM2 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "[H]/N=C/NCCSC1=C(N[C@H](C1)[C@H](C=O)[C@@H](C)O)C(=O)O"
IM2 SMILES "OpenEye OEToolkits" 1.7.6 "CC(C(C=O)C1CC(=C(N1)C(=O)O)SCCNC=N)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
IM2 "SYSTEMATIC NAME" ACDLabs 12.01 "(5R)-5-[(2S,3R)-3-hydroxy-1-oxobutan-2-yl]-3-[(2-{[(E)-iminomethyl]amino}ethyl)sulfanyl]-4,5-dihydro-1H-pyrrole-2-carboxylic acid"
IM2 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "(2R)-4-(2-methanimidamidoethylsulfanyl)-2-[(2S,3R)-3-oxidanyl-1-oxidanylidene-butan-2-yl]-2,3-dihydro-1H-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
IM2 "Create component" 1999-07-13 RCSB
IM2 "Modify descriptor" 2011-06-04 RCSB
IM2 "Modify name" 2011-07-12 RCSB
IM2 "Modify synonyms" 2011-11-16 RCSB
IM2 "Modify synonyms" 2020-06-05 PDBE
IM2 "Modify PCM" 2024-09-27 PDBE
#
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 IM2 "IMIPENEM, open form" ? ?
2 IM2 "N-FORMIMIDOYL-THIENAMYCINE, open form" ? ?
#
loop_
_pdbx_chem_comp_pcm.pcm_id
_pdbx_chem_comp_pcm.comp_id
_pdbx_chem_comp_pcm.modified_residue_id
_pdbx_chem_comp_pcm.type
_pdbx_chem_comp_pcm.category
_pdbx_chem_comp_pcm.position
_pdbx_chem_comp_pcm.polypeptide_position
_pdbx_chem_comp_pcm.comp_id_linking_atom
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession
1 IM2 CYS None "Covalent chemical modification" "Amino-acid side chain" "Any position" C7 SG ? ?
2 IM2 SER None "Covalent chemical modification" "Amino-acid side chain" "Any position" C7 OG ? ?
#