data_SMF
#
_chem_comp.id SMF
_chem_comp.name 4-SULFOMETHYL-L-PHENYLALANINE
_chem_comp.type 'L-PEPTIDE LINKING'
_chem_comp.pdbx_type ATOMP
_chem_comp.formula 'C10 H13 N O5 S'
_chem_comp.mon_nstd_parent_comp_id PHE
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2003-03-18
_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 259.279
_chem_comp.one_letter_code F
_chem_comp.three_letter_code SMF
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag Y
_chem_comp.pdbx_ideal_coordinates_details ?
_chem_comp.pdbx_ideal_coordinates_missing_flag N
_chem_comp.pdbx_model_coordinates_db_code 1NZQ
_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
SMF N N N 0 1 N N N Y Y N 16.491 36.258 -4.884 -0.144 -1.789 0.316 N SMF 1
SMF CA CA C 0 1 N N S Y N N 16.864 36.342 -3.465 1.036 -2.137 1.066 CA SMF 2
SMF CB CB C 0 1 N N N N N N 15.662 35.970 -2.585 1.484 -0.975 1.962 CB SMF 3
SMF CG CG C 0 1 Y N N N N N 14.680 37.109 -2.587 2.940 -1.060 2.353 CG SMF 4
SMF CD1 CD1 C 0 1 Y N N N N N 13.329 36.874 -2.912 3.295 -1.737 3.508 CD1 SMF 5
SMF CE1 CE1 C 0 1 Y N N N N N 12.413 37.946 -2.920 4.640 -1.816 3.869 CE1 SMF 6
SMF CD2 CD2 C 0 1 Y N N N N N 15.115 38.415 -2.266 3.895 -0.458 1.549 CD2 SMF 7
SMF CE2 CE2 C 0 1 Y N N N N N 14.201 39.485 -2.274 5.240 -0.536 1.909 CE2 SMF 8
SMF CZ CZ C 0 1 Y N N N N N 12.850 39.254 -2.602 5.612 -1.215 3.070 CZ SMF 9
SMF CH CH C 0 1 N N N N N N 11.872 40.405 -2.624 7.051 -1.300 3.455 CH SMF 10
SMF S S S 0 1 N N N N N N 11.012 40.601 -1.033 7.726 -2.751 2.714 S SMF 11
SMF O1 O1 O 0 1 N N N N N N 11.923 40.841 0.031 7.592 -2.650 1.272 O1 SMF 12
SMF O2 O2 O 0 1 N N N N N N 10.465 39.213 -0.730 7.249 -3.914 3.440 O2 SMF 13
SMF O3 O3 O 0 1 N N N N N N 9.828 41.368 -1.195 9.286 -2.488 3.114 O3 SMF 14
SMF C C C 0 1 N N N Y N Y 17.992 35.384 -3.208 0.803 -3.383 1.908 C SMF 15
SMF O O O 0 1 N N N Y N Y 18.817 35.600 -2.318 -0.276 -3.645 2.428 O SMF 16
SMF OXT OXT O 0 1 N Y N Y N Y ? ? ? 1.882 -4.192 2.036 OXT SMF 17
SMF H H H 0 1 N N N Y Y N 15.670 36.824 -5.098 -0.247 -2.138 -0.622 H SMF 18
SMF H2 HN2 H 0 1 N Y N Y Y N 17.290 36.505 -5.469 -0.738 -1.051 0.655 H2 SMF 19
SMF HA HA H 0 1 N N N Y N N 17.181 37.382 -3.219 1.804 -2.390 0.327 HA SMF 20
SMF HB2 1HB H 0 1 N N N N N N 15.967 35.675 -1.554 1.324 -0.015 1.454 HB2 SMF 21
SMF HB3 2HB H 0 1 N N N N N N 15.194 35.006 -2.892 0.860 -0.931 2.865 HB3 SMF 22
SMF HD1 HD1 H 0 1 N N N N N N 12.990 35.854 -3.159 2.544 -2.209 4.137 HD1 SMF 23
SMF HE1 HE1 H 0 1 N N N N N N 11.356 37.762 -3.175 4.921 -2.346 4.775 HE1 SMF 24
SMF HD2 HD2 H 0 1 N N N N N N 16.171 38.600 -2.008 3.614 0.073 0.643 HD2 SMF 25
SMF HE2 HE2 H 0 1 N N N N N N 14.543 40.503 -2.023 5.991 -0.066 1.281 HE2 SMF 26
SMF HH2 1HH H 0 1 N N N N N N 11.147 40.304 -3.465 7.187 -1.381 4.539 HH2 SMF 27
SMF HH3 2HH H 0 1 N N N N N N 12.370 41.353 -2.934 7.628 -0.439 3.099 HH3 SMF 28
SMF HO3 HO3 H 0 1 N N N N N N 9.379 41.470 -0.364 9.729 -1.753 2.628 HO3 SMF 29
SMF HXT HXT H 0 1 N Y N Y N Y 0.713 -0.606 0.163 1.731 -4.998 2.574 HXT SMF 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
SMF N CA SING N N 1
SMF N H SING N N 2
SMF N H2 SING N N 3
SMF CA CB SING N N 4
SMF CA C SING N N 5
SMF CA HA SING N N 6
SMF CB CG SING N N 7
SMF CB HB2 SING N N 8
SMF CB HB3 SING N N 9
SMF CG CD1 DOUB Y N 10
SMF CG CD2 SING Y N 11
SMF CD1 CE1 SING Y N 12
SMF CD1 HD1 SING N N 13
SMF CE1 CZ DOUB Y N 14
SMF CE1 HE1 SING N N 15
SMF CD2 CE2 DOUB Y N 16
SMF CD2 HD2 SING N N 17
SMF CE2 CZ SING Y N 18
SMF CE2 HE2 SING N N 19
SMF CZ CH SING N N 20
SMF CH S SING N N 21
SMF CH HH2 SING N N 22
SMF CH HH3 SING N N 23
SMF S O1 DOUB N N 24
SMF S O2 DOUB N N 25
SMF S O3 SING N N 26
SMF O3 HO3 SING N N 27
SMF C O DOUB N N 28
SMF C OXT SING N N 29
SMF OXT HXT SING N N 30
#
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
SMF SMILES ACDLabs 10.04 'O=S(=O)(O)Cc1ccc(cc1)CC(N)C(=O)O'
SMF SMILES_CANONICAL CACTVS 3.341 'N[C@@H](Cc1ccc(C[S](O)(=O)=O)cc1)C(O)=O'
SMF SMILES CACTVS 3.341 'N[CH](Cc1ccc(C[S](O)(=O)=O)cc1)C(O)=O'
SMF SMILES_CANONICAL 'OpenEye OEToolkits' 1.5.0 'c1cc(ccc1C[C@@H](C(=O)O)N)CS(=O)(=O)O'
SMF SMILES 'OpenEye OEToolkits' 1.5.0 'c1cc(ccc1CC(C(=O)O)N)CS(=O)(=O)O'
SMF InChI InChI 1.03 'InChI=1S/C10H13NO5S/c11-9(10(12)13)5-7-1-3-8(4-2-7)6-17(14,15)16/h1-4,9H,5-6,11H2,(H,12,13)(H,14,15,16)/t9-/m0/s1'
SMF InChIKey InChI 1.03 ICCZHONAEMZRSG-VIFPVBQESA-N
#
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
SMF 'SYSTEMATIC NAME' ACDLabs 10.04 '4-(sulfomethyl)-L-phenylalanine'
SMF 'SYSTEMATIC NAME' 'OpenEye OEToolkits' 1.5.0 '(2S)-2-amino-3-[4-(sulfomethyl)phenyl]propanoic 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
SMF 'Create component' 2003-03-18 RCSB
SMF 'Modify descriptor' 2011-06-04 RCSB
SMF 'Modify backbone' 2023-11-03 PDBE
SMF 'Modify PCM' 2024-09-27 PDBE
#
_pdbx_chem_comp_pcm.pcm_id 1
_pdbx_chem_comp_pcm.comp_id SMF
_pdbx_chem_comp_pcm.modified_residue_id PHE
_pdbx_chem_comp_pcm.type None
_pdbx_chem_comp_pcm.category 'Non-standard residue'
_pdbx_chem_comp_pcm.position 'Amino-acid side chain'
_pdbx_chem_comp_pcm.polypeptide_position 'Any 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 ?
#
loop_
_software.name
_software.version
_software.description
rdkit 2025.03.3 'Core functionality.'
pdbeccdutils 1.0.0 '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
SMF N N 3.805 -2.250 1
SMF CA C 5.104 -3.000 2
SMF CB C 6.404 -2.250 3
SMF CG C 6.404 -0.750 4
SMF CD1 C 7.702 0.000 5
SMF CE1 C 7.702 1.500 6
SMF CD2 C 5.104 0.000 7
SMF CE2 C 5.104 1.500 8
SMF CZ C 6.404 2.250 9
SMF CH C 6.404 3.750 10
SMF S S 7.702 4.500 11
SMF O1 O 9.002 5.250 12
SMF O2 O 6.952 5.799 13
SMF O3 O 8.453 3.201 14
SMF C C 5.104 -4.500 15
SMF O O 3.805 -5.250 16
SMF OXT O 6.404 -5.250 17
#
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
SMF CA N SINGLE BEGINWEDGE 1
SMF CA CB SINGLE NONE 2
SMF CA C SINGLE NONE 3
SMF CB CG SINGLE NONE 4
SMF CG CD1 DOUBLE NONE 5
SMF CG CD2 SINGLE NONE 6
SMF CD1 CE1 SINGLE NONE 7
SMF CE1 CZ DOUBLE NONE 8
SMF CD2 CE2 DOUBLE NONE 9
SMF CE2 CZ SINGLE NONE 10
SMF CZ CH SINGLE NONE 11
SMF CH S SINGLE NONE 12
SMF S O1 DOUBLE NONE 13
SMF S O2 DOUBLE NONE 14
SMF S O3 SINGLE NONE 15
SMF C O DOUBLE NONE 16
SMF C OXT SINGLE NONE 17
#
loop_
_pdbe_chem_comp_substructure.comp_id
_pdbe_chem_comp_substructure.substructure_name
_pdbe_chem_comp_substructure.id
_pdbe_chem_comp_substructure.substructure_type
_pdbe_chem_comp_substructure.substructure_smiles
_pdbe_chem_comp_substructure.substructure_inchis
_pdbe_chem_comp_substructure.substructure_inchikeys
SMF MurckoScaffold S1 scaffold c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
SMF peptide F1 fragment NCC=O InChI=1S/C2H5NO/c3-1-2-4/h2H,1,3H2 LYIIBVSRGJSHAV-UHFFFAOYSA-N
SMF phenyl F2 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-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
SMF CG S1 1
SMF CD1 S1 1
SMF CE1 S1 1
SMF CD2 S1 1
SMF CE2 S1 1
SMF CZ S1 1
SMF O F1 1
SMF C F1 1
SMF CA F1 1
SMF N F1 1
SMF CG F2 1
SMF CD1 F2 1
SMF CE1 F2 1
SMF CZ F2 1
SMF CE2 F2 1
SMF CD2 F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id SMF
_pdbe_chem_comp_rdkit_properties.exactmw 259.051
_pdbe_chem_comp_rdkit_properties.amw 259.283
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 6
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 4
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 7
_pdbe_chem_comp_rdkit_properties.NumHBD 3
_pdbe_chem_comp_rdkit_properties.NumHBA 6
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 17
_pdbe_chem_comp_rdkit_properties.NumAtoms 30
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 7
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.300
_pdbe_chem_comp_rdkit_properties.NumRings 1
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 1
_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 117.370
_pdbe_chem_comp_rdkit_properties.tpsa 117.690
_pdbe_chem_comp_rdkit_properties.CrippenClogP -0.081
_pdbe_chem_comp_rdkit_properties.CrippenMR 60.478
_pdbe_chem_comp_rdkit_properties.chi0v 8.713
_pdbe_chem_comp_rdkit_properties.chi1v 5.244
_pdbe_chem_comp_rdkit_properties.chi2v 1.743
_pdbe_chem_comp_rdkit_properties.chi3v 1.743
_pdbe_chem_comp_rdkit_properties.chi4v 1.073
_pdbe_chem_comp_rdkit_properties.chi0n 20.897
_pdbe_chem_comp_rdkit_properties.chi1n 10.047
_pdbe_chem_comp_rdkit_properties.chi2n 1.289
_pdbe_chem_comp_rdkit_properties.chi3n 1.289
_pdbe_chem_comp_rdkit_properties.chi4n 0.720
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.440
_pdbe_chem_comp_rdkit_properties.kappa1 4.044
_pdbe_chem_comp_rdkit_properties.kappa2 5.260
_pdbe_chem_comp_rdkit_properties.kappa3 4.941
_pdbe_chem_comp_rdkit_properties.Phi 1.251
#
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
SMF UniChem ZINC ZINC000013650786
SMF UniChem SureChEMBL SCHEMBL4687973
SMF UniChem Nikkaji J2.724.675C
SMF UniChem 'PubChem TPHARMA' 16072038
SMF UniChem PubChem 11010698
#
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
SMF N -3.157 -0.936 -1.006 ETKDGv3 1
SMF CA -3.290 -0.292 0.305 ETKDGv3 2
SMF CB -2.309 -0.877 1.348 ETKDGv3 3
SMF CG -0.855 -0.652 1.008 ETKDGv3 4
SMF CD1 -0.162 -1.567 0.306 ETKDGv3 5
SMF CE1 1.253 -1.324 -0.045 ETKDGv3 6
SMF CD2 -0.181 0.599 1.432 ETKDGv3 7
SMF CE2 1.101 0.818 1.116 ETKDGv3 8
SMF CZ 1.865 -0.193 0.346 ETKDGv3 9
SMF CH 3.289 0.084 -0.045 ETKDGv3 10
SMF S 3.350 0.933 -1.614 ETKDGv3 11
SMF O1 2.724 0.083 -2.684 ETKDGv3 12
SMF O2 2.602 2.232 -1.512 ETKDGv3 13
SMF O3 4.950 1.252 -2.016 ETKDGv3 14
SMF C -3.150 1.201 0.179 ETKDGv3 15
SMF O -3.799 1.958 0.950 ETKDGv3 16
SMF OXT -2.269 1.751 -0.749 ETKDGv3 17
SMF H -2.196 -0.783 -1.387 ETKDGv3 18
SMF H2 -3.290 -1.967 -0.891 ETKDGv3 19
SMF HA -4.320 -0.499 0.673 ETKDGv3 20
SMF HB2 -2.523 -0.420 2.339 ETKDGv3 21
SMF HB3 -2.507 -1.966 1.464 ETKDGv3 22
SMF HD1 -0.633 -2.486 -0.021 ETKDGv3 23
SMF HE1 1.784 -2.067 -0.627 ETKDGv3 24
SMF HD2 -0.727 1.346 1.995 ETKDGv3 25
SMF HE2 1.579 1.739 1.425 ETKDGv3 26
SMF HH2 3.866 -0.862 -0.120 ETKDGv3 27
SMF HH3 3.779 0.716 0.726 ETKDGv3 28
SMF HO3 5.380 0.361 -2.077 ETKDGv3 29
SMF HXT -2.152 2.754 -0.822 ETKDGv3 30
#