data_A1A39
#
_chem_comp.id A1A39
_chem_comp.name "(3R)-N-methyl-1-(pyridazin-3-yl)piperidin-3-amine"
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C10 H16 N4"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2024-08-29
_chem_comp.pdbx_modified_date 2024-11-01
_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 192.261
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code A1A39
_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 7HH4
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site RCSB
_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
A1A39 N1 N1 N 0 1 N N N N N N 1.998 -25.577 -6.399 -0.022 0.514 0.347 N1 A1A39 1
A1A39 N3 N2 N 0 1 Y N N N N N 3.072 -26.974 -7.914 -1.596 -1.087 -0.360 N3 A1A39 2
A1A39 C4 C1 C 0 1 N N N N N N 1.991 -24.194 -5.932 0.202 1.809 -0.307 C4 A1A39 3
A1A39 C5 C2 C 0 1 N N N N N N 2.364 -26.495 -5.317 0.919 -0.500 -0.145 C5 A1A39 4
A1A39 C6 C3 C 0 1 Y N N N N N 2.427 -25.823 -7.697 -1.337 0.094 0.182 C6 A1A39 5
A1A39 C7 C4 C 0 1 Y N N N N N 2.189 -24.902 -8.738 -2.391 0.913 0.587 C7 A1A39 6
A1A39 C8 C5 C 0 1 Y N N N N N 2.653 -25.235 -10.000 -3.683 0.448 0.402 C8 A1A39 7
A1A39 C C6 C 0 1 N N N N N N 2.669 -25.879 -2.027 3.470 -2.169 0.635 C A1A39 8
A1A39 N N3 N 0 1 N N N N N N 2.095 -26.910 -2.907 3.294 -1.074 -0.328 N A1A39 9
A1A39 C1 C7 C 0 1 N N S N N N 1.432 -26.362 -4.112 2.351 -0.070 0.183 C1 A1A39 10
A1A39 C3 C8 C 0 1 N N N N N N 0.953 -24.014 -4.854 1.612 2.308 0.017 C3 A1A39 11
A1A39 C2 C9 C 0 1 N N N N N N 1.251 -24.920 -3.671 2.637 1.282 -0.476 C2 A1A39 12
A1A39 N2 N4 N 0 1 Y N N N N N 3.533 -27.271 -9.155 -2.795 -1.512 -0.529 N2 A1A39 13
A1A39 C9 C10 C 0 1 Y N N N N N 3.330 -26.422 -10.150 -3.849 -0.803 -0.176 C9 A1A39 14
A1A39 H10 H1 H 0 1 N N N N N N 1.759 -23.527 -6.775 0.096 1.695 -1.386 H10 A1A39 15
A1A39 H9 H2 H 0 1 N N N N N N 2.982 -23.942 -5.528 -0.530 2.531 0.055 H9 A1A39 16
A1A39 H11 H3 H 0 1 N N N N N N 2.312 -27.527 -5.694 0.708 -1.455 0.335 H11 A1A39 17
A1A39 H12 H4 H 0 1 N N N N N N 3.393 -26.274 -4.996 0.810 -0.603 -1.225 H12 A1A39 18
A1A39 H13 H5 H 0 1 N N N N N N 1.666 -23.974 -8.559 -2.205 1.880 1.032 H13 A1A39 19
A1A39 H14 H6 H 0 1 N N N N N N 2.487 -24.580 -10.843 -4.535 1.041 0.697 H14 A1A39 20
A1A39 H2 H7 H 0 1 N N N N N N 3.142 -26.360 -1.158 3.858 -1.770 1.572 H2 A1A39 21
A1A39 H H8 H 0 1 N N N N N N 3.423 -25.302 -2.582 2.509 -2.652 0.815 H A1A39 22
A1A39 H1 H9 H 0 1 N N N N N N 1.871 -25.204 -1.684 4.173 -2.898 0.232 H1 A1A39 23
A1A39 H3 H10 H 0 1 N N N N N N 2.831 -27.519 -3.201 4.180 -0.651 -0.561 H3 A1A39 24
A1A39 H4 H12 H 0 1 N N N N N N 0.463 -26.846 -4.304 2.465 0.020 1.263 H4 A1A39 25
A1A39 H7 H13 H 0 1 N N N N N N -0.038 -24.264 -5.261 1.784 3.262 -0.482 H7 A1A39 26
A1A39 H8 H14 H 0 1 N N N N N N 0.958 -22.967 -4.518 1.714 2.437 1.094 H8 A1A39 27
A1A39 H5 H15 H 0 1 N N N N N N 0.415 -24.866 -2.958 3.641 1.613 -0.209 H5 A1A39 28
A1A39 H6 H16 H 0 1 N N N N N N 2.174 -24.577 -3.180 2.561 1.183 -1.559 H6 A1A39 29
A1A39 H15 H17 H 0 1 N N N N N N 3.715 -26.674 -11.127 -4.842 -1.197 -0.335 H15 A1A39 30
#
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
A1A39 N C SING N N 1
A1A39 C1 N SING N N 2
A1A39 C1 C2 SING N N 3
A1A39 C2 C3 SING N N 4
A1A39 C3 C4 SING N N 5
A1A39 C4 N1 SING N N 6
A1A39 N1 C5 SING N N 7
A1A39 C5 C1 SING N N 8
A1A39 C6 N1 SING N N 9
A1A39 C6 C7 SING Y N 10
A1A39 C7 C8 DOUB Y N 11
A1A39 C8 C9 SING Y N 12
A1A39 C9 N2 DOUB Y N 13
A1A39 N2 N3 SING Y N 14
A1A39 N3 C6 DOUB Y N 15
A1A39 C4 H10 SING N N 16
A1A39 C4 H9 SING N N 17
A1A39 C5 H11 SING N N 18
A1A39 C5 H12 SING N N 19
A1A39 C7 H13 SING N N 20
A1A39 C8 H14 SING N N 21
A1A39 C H2 SING N N 22
A1A39 C H SING N N 23
A1A39 C H1 SING N N 24
A1A39 N H3 SING N N 25
A1A39 C1 H4 SING N N 26
A1A39 C3 H7 SING N N 27
A1A39 C3 H8 SING N N 28
A1A39 C2 H5 SING N N 29
A1A39 C2 H6 SING N N 30
A1A39 C9 H15 SING N N 31
#
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
A1A39 SMILES ACDLabs 14.52 "CNC1CCCN(C1)c1nnccc1"
A1A39 InChI InChI 1.06 "InChI=1S/C10H16N4/c1-11-9-4-3-7-14(8-9)10-5-2-6-12-13-10/h2,5-6,9,11H,3-4,7-8H2,1H3/t9-/m1/s1"
A1A39 InChIKey InChI 1.06 QLSDWIHANVSIEK-SECBINFHSA-N
A1A39 SMILES_CANONICAL CACTVS 3.385 "CN[C@H]1CCCN(C1)c2cccnn2"
A1A39 SMILES CACTVS 3.385 "CN[CH]1CCCN(C1)c2cccnn2"
A1A39 SMILES_CANONICAL "OpenEye OEToolkits" 3.1.0.0 "CN[C@H]1CCCN(C1)c2cccnn2"
A1A39 SMILES "OpenEye OEToolkits" 3.1.0.0 "CNC1CCCN(C1)c2cccnn2"
#
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
A1A39 "SYSTEMATIC NAME" ACDLabs 14.52 "(3R)-N-methyl-1-(pyridazin-3-yl)piperidin-3-amine"
A1A39 "SYSTEMATIC NAME" "OpenEye OEToolkits" 3.1.0.0 "(3~{S})-~{N}-methyl-1-pyridazin-3-yl-piperidin-3-amine"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
A1A39 "Create component" 2024-08-29 RCSB
A1A39 "Initial release" 2024-11-06 RCSB
#