data_A1ECN
#
_chem_comp.id A1ECN
_chem_comp.name "(3~{S})-1,2-diazinane-3-carboxylic acid"
_chem_comp.type peptide-like
_chem_comp.pdbx_type ATOMP
_chem_comp.formula "C5 H10 N2 O2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms "(S)-Hexahydropyridazine-3-carboxylic acid; S-Piperazic acid; (3S)-piperazate; (3S)-Pyridazin-3-carboxylate"
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2024-09-29
_chem_comp.pdbx_modified_date 2025-01-24
_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 130.145
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code A1ECN
_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 9JN6
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site PDBC
_chem_comp.pdbx_pcm ?
#
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_n_terminal_atom_flag
_chem_comp_atom.pdbx_backbone_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
A1ECN OXT O1 O 0 1 N Y N N Y Y -33.602 9.985 40.669 -2.625 -0.764 -0.526 OXT A1ECN 1
A1ECN C C1 C 0 1 N N N N Y Y -32.362 10.188 40.519 -1.709 0.065 -0.002 C A1ECN 2
A1ECN O O2 O 0 1 N N N N Y Y -31.495 9.308 40.537 -2.047 0.922 0.780 O A1ECN 3
A1ECN CA C2 C 0 1 N N S N Y N -31.913 11.687 40.236 -0.259 -0.072 -0.390 CA A1ECN 4
A1ECN CB C3 C 0 1 N N N N N N -30.936 12.226 41.178 0.378 -1.212 0.409 CB A1ECN 5
A1ECN CAC C4 C 0 1 N N N N N N -31.640 12.547 42.564 1.865 -1.305 0.051 CAC A1ECN 6
A1ECN CAD C5 C 0 1 N N N N N N -33.081 12.434 42.731 2.532 0.046 0.323 CAD A1ECN 7
A1ECN NAG N1 N 0 1 N N N N N N -33.837 12.566 41.484 1.852 1.089 -0.457 NAG A1ECN 8
A1ECN N N2 N 0 1 N N N Y Y N -33.107 12.538 40.287 0.448 1.183 -0.096 N A1ECN 9
A1ECN HXT H1 H 0 1 N Y N N Y Y -33.758 9.057 40.796 -3.542 -0.638 -0.248 HXT A1ECN 10
A1ECN HA H2 H 0 1 N N N N Y N -31.491 11.720 39.221 -0.186 -0.288 -1.456 HA A1ECN 11
A1ECN H3 H3 H 0 1 N N N N N N -30.137 11.487 41.338 0.272 -1.014 1.475 H3 A1ECN 12
A1ECN H4 H4 H 0 1 N N N N N N -30.504 13.150 40.766 -0.116 -2.151 0.160 H4 A1ECN 13
A1ECN H5 H5 H 0 1 N N N N N N -31.188 11.871 43.305 2.338 -2.075 0.661 H5 A1ECN 14
A1ECN H6 H6 H 0 1 N N N N N N -31.380 13.587 42.810 1.970 -1.558 -1.004 H6 A1ECN 15
A1ECN H7 H7 H 0 1 N N N N N N -33.412 13.224 43.422 2.459 0.280 1.385 H7 A1ECN 16
A1ECN H1 H8 H 0 1 N N N N N N -33.302 11.449 43.167 3.581 -0.001 0.032 H1 A1ECN 17
A1ECN H9 H9 H 0 1 N N N N N N -34.325 13.438 41.519 1.962 0.929 -1.447 H9 A1ECN 18
A1ECN H H10 H 0 1 N Y N Y Y N -32.815 13.475 40.093 0.007 1.963 -0.558 H A1ECN 19
#
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
A1ECN CA N SING N N 1
A1ECN CA C SING N N 2
A1ECN CA CB SING N N 3
A1ECN N NAG SING N N 4
A1ECN C O DOUB N N 5
A1ECN C OXT SING N N 6
A1ECN CB CAC SING N N 7
A1ECN NAG CAD SING N N 8
A1ECN CAC CAD SING N N 9
A1ECN OXT HXT SING N N 10
A1ECN CA HA SING N N 11
A1ECN CB H3 SING N N 12
A1ECN CB H4 SING N N 13
A1ECN CAC H5 SING N N 14
A1ECN CAC H6 SING N N 15
A1ECN CAD H7 SING N N 16
A1ECN CAD H1 SING N N 17
A1ECN NAG H9 SING N N 18
A1ECN N H SING N N 19
#
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
A1ECN InChI InChI 1.06 "InChI=1S/C5H10N2O2/c8-5(9)4-2-1-3-6-7-4/h4,6-7H,1-3H2,(H,8,9)/t4-/m0/s1"
A1ECN InChIKey InChI 1.06 BZIBRGSBQKLEDC-BYPYZUCNSA-N
A1ECN SMILES_CANONICAL CACTVS 3.385 "OC(=O)[C@@H]1CCCNN1"
A1ECN SMILES CACTVS 3.385 "OC(=O)[CH]1CCCNN1"
A1ECN SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C1C[C@H](NNC1)C(=O)O"
A1ECN SMILES "OpenEye OEToolkits" 2.0.7 "C1CC(NNC1)C(=O)O"
#
_pdbx_chem_comp_identifier.comp_id A1ECN
_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 "(3~{S})-1,2-diazinane-3-carboxylic acid"
#
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 A1ECN "(S)-Hexahydropyridazine-3-carboxylic acid" PUBCHEM ?
2 A1ECN "S-Piperazic acid" PUBCHEM ?
3 A1ECN "(3S)-piperazate" PUBCHEM ?
4 A1ECN "(3S)-Pyridazin-3-carboxylate" PUBCHEM ?
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
A1ECN "Create component" 2024-09-29 PDBC
A1ECN "Initial release" 2025-01-29 RCSB
#