data_3MM
#
_chem_comp.id 3MM
_chem_comp.name (1R)-1-CARBOXY-N,N,N-TRIMETHYL-3-(METHYLSULFANYL)PROPAN-1-AMINIUM
_chem_comp.type "D-PEPTIDE NH3 AMINO TERMINUS"
_chem_comp.pdbx_type ATOMP
_chem_comp.formula "C8 H18 N O2 S"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms N,N,N-TRIMETHYL-L-METHIONINE
_chem_comp.pdbx_formal_charge 1
_chem_comp.pdbx_initial_date 2008-03-17
_chem_comp.pdbx_modified_date 2021-03-13
_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 192.299
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 3MM
_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 3CJU
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site RCSB
#
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
3MM CAA CAA C 0 1 N N N N N N -39.683 -29.468 15.896 4.404 0.310 0.380 CAA 3MM 1
3MM SAI SAI S 0 1 N N N N N N -38.291 -29.845 14.865 3.095 -0.727 -0.331 SAI 3MM 2
3MM CAG CAG C 0 1 N N N N N N -38.689 -30.312 13.203 1.578 0.042 0.299 CAG 3MM 3
3MM CAH CAH C 0 1 N N N N N N -40.198 -30.525 13.001 0.362 -0.728 -0.219 CAH 3MM 4
3MM CAK CAK C 0 1 N N R N N N -40.549 -31.966 12.661 -0.902 -0.206 0.465 CAK 3MM 5
3MM CAJ CAJ C 0 1 N N N N N N -39.783 -32.453 11.469 -2.079 -1.058 0.063 CAJ 3MM 6
3MM OAF OAF O 0 1 N N N N N N -39.340 -33.574 11.499 -2.651 -0.845 -0.979 OAF 3MM 7
3MM NAL NAL N 1 1 N N N N N N -41.967 -32.385 12.535 -1.142 1.184 0.056 NAL 3MM 8
3MM CAB CAB C 0 1 N N N N N N -41.975 -33.678 13.229 -0.729 1.361 -1.343 CAB 3MM 9
3MM CAC CAC C 0 1 N N N N N N -42.892 -31.439 13.182 -2.572 1.494 0.187 CAC 3MM 10
3MM CAD CAD C 0 1 N N N N N N -42.461 -32.570 11.152 -0.365 2.088 0.914 CAD 3MM 11
3MM OXT OXT O 0 1 N Y N N N N -39.404 -31.427 10.062 -2.491 -2.054 0.864 OXT 3MM 12
3MM H1AA H1AA H 0 0 N N N N N N -39.354 -29.390 16.943 4.280 1.337 0.036 H1AA 3MM 13
3MM H2AA H2AA H 0 0 N N N N N N -40.126 -28.512 15.579 4.340 0.281 1.468 H2AA 3MM 14
3MM H3AA H3AA H 0 0 N N N N N N -40.433 -30.268 15.806 5.377 -0.065 0.063 H3AA 3MM 15
3MM H1AG H1AG H 0 0 N N N N N N -38.355 -29.512 12.526 1.585 0.020 1.389 H1AG 3MM 16
3MM H2AG H2AG H 0 0 N N N N N N -38.182 -31.265 12.989 1.526 1.076 -0.043 H2AG 3MM 17
3MM H1AH H1AH H 0 0 N N N N N N -40.715 -30.253 13.933 0.276 -0.589 -1.297 H1AH 3MM 18
3MM H2AH H2AH H 0 0 N N N N N N -40.513 -29.897 12.155 0.483 -1.789 0.001 H2AH 3MM 19
3MM HAK HAK H 0 1 N N N N N N -40.244 -32.451 13.600 -0.775 -0.250 1.546 HAK 3MM 20
3MM H1AB H1AB H 0 0 N N N N N N -41.977 -34.492 12.489 -1.196 0.592 -1.959 H1AB 3MM 21
3MM H2AB H2AB H 0 0 N N N N N N -41.079 -33.760 13.862 -1.041 2.345 -1.692 H2AB 3MM 22
3MM H3AB H3AB H 0 0 N N N N N N -42.875 -33.751 13.857 0.355 1.276 -1.415 H3AB 3MM 23
3MM H1AC H1AC H 0 0 N N N N N N -43.123 -31.789 14.199 -2.871 1.393 1.230 H1AC 3MM 24
3MM H2AC H2AC H 0 0 N N N N N N -42.423 -30.445 13.233 -2.755 2.515 -0.147 H2AC 3MM 25
3MM H3AC H3AC H 0 0 N N N N N N -43.821 -31.377 12.597 -3.151 0.802 -0.425 H3AC 3MM 26
3MM H1AD H1AD H 0 0 N N N N N N -43.560 -32.616 11.158 0.695 1.991 0.678 H1AD 3MM 27
3MM H2AD H2AD H 0 0 N N N N N N -42.133 -31.725 10.529 -0.683 3.116 0.741 H2AD 3MM 28
3MM H3AD H3AD H 0 0 N N N N N N -42.057 -33.507 10.741 -0.529 1.828 1.959 H3AD 3MM 29
3MM HOXT HOXT H 0 0 N Y N N N N -38.859 -31.912 9.454 -3.250 -2.573 0.564 HOXT 3MM 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
3MM CAA SAI SING N N 1
3MM SAI CAG SING N N 2
3MM CAG CAH SING N N 3
3MM CAH CAK SING N N 4
3MM CAK CAJ SING N N 5
3MM CAK NAL SING N N 6
3MM CAJ OAF DOUB N N 7
3MM CAJ OXT SING N N 8
3MM NAL CAB SING N N 9
3MM NAL CAC SING N N 10
3MM NAL CAD SING N N 11
3MM CAA H1AA SING N N 12
3MM CAA H2AA SING N N 13
3MM CAA H3AA SING N N 14
3MM CAG H1AG SING N N 15
3MM CAG H2AG SING N N 16
3MM CAH H1AH SING N N 17
3MM CAH H2AH SING N N 18
3MM CAK HAK SING N N 19
3MM CAB H1AB SING N N 20
3MM CAB H2AB SING N N 21
3MM CAB H3AB SING N N 22
3MM CAC H1AC SING N N 23
3MM CAC H2AC SING N N 24
3MM CAC H3AC SING N N 25
3MM CAD H1AD SING N N 26
3MM CAD H2AD SING N N 27
3MM CAD H3AD SING N N 28
3MM OXT HOXT SING N N 29
#
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
3MM SMILES ACDLabs 10.04 O=C(O)C([N+](C)(C)C)CCSC
3MM SMILES_CANONICAL CACTVS 3.341 CSCC[C@H](C(O)=O)[N+](C)(C)C
3MM SMILES CACTVS 3.341 CSCC[CH](C(O)=O)[N+](C)(C)C
3MM SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 C[N+](C)(C)[C@H](CCSC)C(=O)O
3MM SMILES "OpenEye OEToolkits" 1.5.0 C[N+](C)(C)C(CCSC)C(=O)O
3MM InChI InChI 1.03 InChI=1S/C8H17NO2S/c1-9(2,3)7(8(10)11)5-6-12-4/h7H,5-6H2,1-4H3/p+1/t7-/m1/s1
3MM InChIKey InChI 1.03 LIOVZIQCHLSVBO-SSDOTTSWSA-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
3MM "SYSTEMATIC NAME" ACDLabs 10.04 (1R)-1-carboxy-N,N,N-trimethyl-3-(methylsulfanyl)propan-1-aminium
3MM "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R)-1-hydroxy-4-methylsulfanyl-1-oxo-butan-2-yl]-trimethyl-azanium"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
3MM 'Create component' 2008-03-17 RCSB
3MM 'Modify descriptor' 2011-06-04 RCSB
3MM 'Modify synonyms' 2021-03-13 RCSB
#
_pdbx_chem_comp_synonyms.ordinal 1
_pdbx_chem_comp_synonyms.comp_id 3MM
_pdbx_chem_comp_synonyms.name N,N,N-TRIMETHYL-L-METHIONINE
_pdbx_chem_comp_synonyms.provenance PDB
_pdbx_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_synonyms.comp_id 3MM
_pdbe_chem_comp_synonyms.name N,N,N-TRIMETHYL-L-METHIONINE
_pdbe_chem_comp_synonyms.provenance wwPDB
_pdbe_chem_comp_synonyms.type ?
#
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
3MM CAA C 3.805 -3.375 1
3MM SAI S 5.104 -2.625 2
3MM CAG C 5.104 -1.125 3
3MM CAH C 6.404 -0.375 4
3MM CAK C 6.404 1.125 5
3MM CAJ C 5.104 1.875 6
3MM OAF O 3.805 1.125 7
3MM NAL N 7.702 1.875 8
3MM CAB C 9.002 2.625 9
3MM CAC C 8.453 0.576 10
3MM CAD C 6.952 3.174 11
3MM OXT O 5.104 3.375 12
#
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
3MM CAA SAI SINGLE NONE 1
3MM SAI CAG SINGLE NONE 2
3MM CAG CAH SINGLE NONE 3
3MM CAK CAH SINGLE BEGINDASH 4
3MM CAK CAJ SINGLE NONE 5
3MM CAK NAL SINGLE NONE 6
3MM CAJ OAF DOUBLE NONE 7
3MM CAJ OXT SINGLE NONE 8
3MM NAL CAB SINGLE NONE 9
3MM NAL CAC SINGLE NONE 10
3MM NAL CAD SINGLE NONE 11
#
_pdbe_chem_comp_substructure.comp_id 3MM
_pdbe_chem_comp_substructure.substructure_name peptide
_pdbe_chem_comp_substructure.id F1
_pdbe_chem_comp_substructure.substructure_type fragment
_pdbe_chem_comp_substructure.substructure_smiles NCC=O
_pdbe_chem_comp_substructure.substructure_inchis InChI=1S/C2H5NO/c3-1-2-4/h2H,1,3H2
_pdbe_chem_comp_substructure.substructure_inchikeys LYIIBVSRGJSHAV-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
3MM OAF F1 1
3MM CAJ F1 1
3MM CAK F1 1
3MM NAL F1 1
#
_pdbe_chem_comp_rdkit_properties.comp_id 3MM
_pdbe_chem_comp_rdkit_properties.exactmw 192.105
_pdbe_chem_comp_rdkit_properties.amw 192.304
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 3
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 1
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 9
_pdbe_chem_comp_rdkit_properties.NumHBD 1
_pdbe_chem_comp_rdkit_properties.NumHBA 3
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 12
_pdbe_chem_comp_rdkit_properties.NumAtoms 30
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 4
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.875
_pdbe_chem_comp_rdkit_properties.NumRings 0
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 1
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 103.719
_pdbe_chem_comp_rdkit_properties.tpsa 37.300
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.899
_pdbe_chem_comp_rdkit_properties.CrippenMR 52.455
_pdbe_chem_comp_rdkit_properties.chi0v 6.488
_pdbe_chem_comp_rdkit_properties.chi1v 3.277
_pdbe_chem_comp_rdkit_properties.chi2v 0.953
_pdbe_chem_comp_rdkit_properties.chi3v 0.953
_pdbe_chem_comp_rdkit_properties.chi4v 0.493
_pdbe_chem_comp_rdkit_properties.chi0n 23.672
_pdbe_chem_comp_rdkit_properties.chi1n 11.369
_pdbe_chem_comp_rdkit_properties.chi2n 0.749
_pdbe_chem_comp_rdkit_properties.chi3n 0.749
_pdbe_chem_comp_rdkit_properties.chi4n 0.346
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.220
_pdbe_chem_comp_rdkit_properties.kappa1 1.653
_pdbe_chem_comp_rdkit_properties.kappa2 4.720
_pdbe_chem_comp_rdkit_properties.kappa3 3.970
_pdbe_chem_comp_rdkit_properties.Phi 0.650
#
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
3MM UniChem PDBe 3MM
3MM UniChem ZINC ZINC000058638399
#
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
3MM CAA 3.987 1.175 1.012 ETKDGv3 1
3MM SAI 3.735 0.343 -0.590 ETKDGv3 2
3MM CAG 2.257 -0.607 -0.084 ETKDGv3 3
3MM CAH 0.978 0.202 -0.347 ETKDGv3 4
3MM CAK -0.306 -0.563 0.101 ETKDGv3 5
3MM CAJ -0.449 -1.843 -0.705 ETKDGv3 6
3MM OAF -0.319 -1.836 -1.960 ETKDGv3 7
3MM NAL -1.566 0.273 0.096 ETKDGv3 8
3MM CAB -2.720 -0.551 0.546 ETKDGv3 9
3MM CAC -1.444 1.409 1.049 ETKDGv3 10
3MM CAD -1.880 0.821 -1.249 ETKDGv3 11
3MM OXT -0.735 -3.038 -0.051 ETKDGv3 12
3MM H1AA 4.862 1.852 0.932 ETKDGv3 13
3MM H2AA 3.096 1.777 1.284 ETKDGv3 14
3MM H3AA 4.190 0.425 1.804 ETKDGv3 15
3MM H1AG 2.242 -1.539 -0.687 ETKDGv3 16
3MM H2AG 2.323 -0.897 0.987 ETKDGv3 17
3MM H1AH 1.077 1.153 0.209 ETKDGv3 18
3MM H2AH 0.931 0.444 -1.430 ETKDGv3 19
3MM HAK -0.116 -0.886 1.151 ETKDGv3 20
3MM H1AB -3.647 0.058 0.639 ETKDGv3 21
3MM H2AB -2.516 -1.015 1.537 ETKDGv3 22
3MM H3AB -2.952 -1.363 -0.178 ETKDGv3 23
3MM H1AC -2.423 1.916 1.207 ETKDGv3 24
3MM H2AC -0.761 2.199 0.672 ETKDGv3 25
3MM H3AC -1.079 1.065 2.042 ETKDGv3 26
3MM H1AD -1.078 1.497 -1.613 ETKDGv3 27
3MM H2AD -2.819 1.419 -1.224 ETKDGv3 28
3MM H3AD -2.029 0.013 -1.995 ETKDGv3 29
3MM HOXT -0.839 -3.902 -0.570 ETKDGv3 30
#