data_PPQ
#
_chem_comp.id PPQ
_chem_comp.name PHOSPHINOTHRICIN
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C5 H12 N O4 P"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms "2-AMINO-4-(HYDROXYMETHYL-PHOSPHINYL)BUTANOIC ACID"
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2000-09-27
_chem_comp.pdbx_modified_date 2020-06-17
_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 181.127
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code PPQ
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag N
_chem_comp.pdbx_ideal_coordinates_details ?
_chem_comp.pdbx_ideal_coordinates_missing_flag N
_chem_comp.pdbx_model_coordinates_db_code 1FPY
_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
PPQ NP NP N 0 1 N N N N N N -36.878 40.728 -31.325 -1.867 0.311 -1.850 NP PPQ 1
PPQ CAP CAP C 0 1 N N S N N N -36.374 42.050 -31.664 -0.426 0.591 -1.793 CAP PPQ 2
PPQ CBP CBP C 0 1 N N N N N N -36.667 42.994 -30.514 0.155 0.012 -0.502 CBP PPQ 3
PPQ CGP CGP C 0 1 N N N N N N -38.110 42.939 -30.029 -0.537 0.654 0.701 CGP PPQ 4
PPQ PDP PDP P 0 1 N N R N N N -39.024 43.909 -28.854 0.155 -0.036 2.240 PDP PPQ 5
PPQ CEP CEP C 0 1 N N N N N N -38.182 45.039 -27.822 -0.669 0.728 3.674 CEP PPQ 6
PPQ OEA OEA O 0 1 N N N N N N -39.788 42.982 -28.024 1.607 0.246 2.297 OEA PPQ 7
PPQ OEB OEB O 0 1 N N N N N N -40.069 44.760 -29.622 -0.082 -1.628 2.269 OEB PPQ 8
PPQ CP CP C 0 1 N N N N N N -34.866 41.973 -31.987 0.255 -0.040 -2.979 CP PPQ 9
PPQ OP OP O 0 1 N N N N N N -34.062 42.718 -31.419 -0.194 -1.049 -3.468 OP PPQ 10
PPQ OTP OTP O 0 1 N N N N N N -34.531 41.252 -32.935 1.362 0.518 -3.493 OTP PPQ 11
PPQ HNP1 1HNP H 0 0 N N N N N N -36.680 40.093 -32.098 -1.968 -0.692 -1.829 HNP1 PPQ 12
PPQ HNP2 2HNP H 0 0 N N N N N N -37.866 40.740 -31.073 -2.265 0.660 -0.991 HNP2 PPQ 13
PPQ HAP HAP H 0 1 N N N N N N -36.883 42.441 -32.575 -0.265 1.669 -1.813 HAP PPQ 14
PPQ HBP1 1HBP H 0 0 N N N N N N -35.961 42.816 -29.669 1.224 0.220 -0.460 HBP1 PPQ 15
PPQ HBP2 2HBP H 0 0 N N N N N N -36.380 44.038 -30.779 -0.006 -1.065 -0.482 HBP2 PPQ 16
PPQ HGP1 1HGP H 0 0 N N N N N N -38.715 43.000 -30.963 -1.606 0.445 0.659 HGP1 PPQ 17
PPQ HGP2 2HGP H 0 0 N N N N N N -38.240 41.889 -29.676 -0.376 1.731 0.681 HGP2 PPQ 18
PPQ HEP1 1HEP H 0 0 N N N N N N -38.755 45.647 -27.084 -0.255 0.315 4.594 HEP1 PPQ 19
PPQ HEP2 2HEP H 0 0 N N N N N N -37.376 44.491 -27.279 -0.508 1.806 3.654 HEP2 PPQ 20
PPQ HEP3 3HEP H 0 0 N N N N N N -37.586 45.729 -28.464 -1.738 0.520 3.632 HEP3 PPQ 21
PPQ HEB HEB H 0 1 N N N N N N -40.557 45.278 -28.993 -1.038 -1.768 2.230 HEB PPQ 22
PPQ HTP HTP H 0 1 N N N N N N -33.603 41.204 -33.133 1.800 0.112 -4.254 HTP PPQ 23
#
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
PPQ NP CAP SING N N 1
PPQ NP HNP1 SING N N 2
PPQ NP HNP2 SING N N 3
PPQ CAP CBP SING N N 4
PPQ CAP CP SING N N 5
PPQ CAP HAP SING N N 6
PPQ CBP CGP SING N N 7
PPQ CBP HBP1 SING N N 8
PPQ CBP HBP2 SING N N 9
PPQ CGP PDP SING N N 10
PPQ CGP HGP1 SING N N 11
PPQ CGP HGP2 SING N N 12
PPQ PDP CEP SING N N 13
PPQ PDP OEA DOUB N N 14
PPQ PDP OEB SING N N 15
PPQ CEP HEP1 SING N N 16
PPQ CEP HEP2 SING N N 17
PPQ CEP HEP3 SING N N 18
PPQ OEB HEB SING N N 19
PPQ CP OP DOUB N N 20
PPQ CP OTP SING N N 21
PPQ OTP HTP SING N N 22
#
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
PPQ SMILES ACDLabs 10.04 O=P(O)(C)CCC(C(=O)O)N
PPQ SMILES_CANONICAL CACTVS 3.341 C[P@](O)(=O)CC[C@H](N)C(O)=O
PPQ SMILES CACTVS 3.341 C[P](O)(=O)CC[CH](N)C(O)=O
PPQ SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 C[P@](=O)(CC[C@@H](C(=O)O)N)O
PPQ SMILES "OpenEye OEToolkits" 1.5.0 CP(=O)(CCC(C(=O)O)N)O
PPQ InChI InChI 1.03 InChI=1S/C5H12NO4P/c1-11(9,10)3-2-4(6)5(7)8/h4H,2-3,6H2,1H3,(H,7,8)(H,9,10)/t4-/m0/s1
PPQ InChIKey InChI 1.03 IAJOBQBIJHVGMQ-BYPYZUCNSA-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
PPQ "SYSTEMATIC NAME" ACDLabs 10.04 "(2S)-2-amino-4-[(R)-hydroxy(methyl)phosphoryl]butanoic acid"
PPQ "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(2S)-2-amino-4-(hydroxy-methyl-phosphoryl)butanoic 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
PPQ 'Create component' 2000-09-27 RCSB
PPQ 'Modify descriptor' 2011-06-04 RCSB
PPQ 'Modify synonyms' 2020-06-05 PDBE
#
_pdbx_chem_comp_synonyms.ordinal 1
_pdbx_chem_comp_synonyms.comp_id PPQ
_pdbx_chem_comp_synonyms.name "2-AMINO-4-(HYDROXYMETHYL-PHOSPHINYL)BUTANOIC ACID"
_pdbx_chem_comp_synonyms.provenance ?
_pdbx_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_synonyms.comp_id PPQ
_pdbe_chem_comp_synonyms.name '2-AMINO-4-(HYDROXYMETHYL-PHOSPHINYL)BUTANOIC ACID'
_pdbe_chem_comp_synonyms.provenance wwPDB
_pdbe_chem_comp_synonyms.type ?
#
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
PPQ NP N 10.301 -0.851 1
PPQ CAP C 9.002 -0.101 2
PPQ CBP C 7.702 -0.851 3
PPQ CGP C 6.404 -0.101 4
PPQ PDP P 5.104 -0.851 5
PPQ CEP C 3.805 -1.601 6
PPQ OEA O 5.854 -2.150 7
PPQ OEB O 4.354 0.449 8
PPQ CP C 9.002 1.399 9
PPQ OP O 10.301 2.150 10
PPQ OTP O 7.702 2.150 11
#
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
PPQ CAP NP SINGLE BEGINWEDGE 1
PPQ CAP CBP SINGLE NONE 2
PPQ CAP CP SINGLE NONE 3
PPQ CBP CGP SINGLE NONE 4
PPQ CGP PDP SINGLE NONE 5
PPQ PDP CEP SINGLE BEGINWEDGE 6
PPQ PDP OEA DOUBLE NONE 7
PPQ PDP OEB SINGLE NONE 8
PPQ CP OP DOUBLE NONE 9
PPQ CP OTP SINGLE NONE 10
#
_pdbe_chem_comp_substructure.comp_id PPQ
_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
PPQ OP F1 1
PPQ CP F1 1
PPQ CAP F1 1
PPQ NP F1 1
#
_pdbe_chem_comp_rdkit_properties.comp_id PPQ
_pdbe_chem_comp_rdkit_properties.exactmw 181.050
_pdbe_chem_comp_rdkit_properties.amw 181.128
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 5
_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 5
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 11
_pdbe_chem_comp_rdkit_properties.NumAtoms 23
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 6
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.800
_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 2
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 81.814
_pdbe_chem_comp_rdkit_properties.tpsa 100.620
_pdbe_chem_comp_rdkit_properties.CrippenClogP -0.311
_pdbe_chem_comp_rdkit_properties.CrippenMR 40.845
_pdbe_chem_comp_rdkit_properties.chi0v 5.922
_pdbe_chem_comp_rdkit_properties.chi1v 3.819
_pdbe_chem_comp_rdkit_properties.chi2v 0.921
_pdbe_chem_comp_rdkit_properties.chi3v 0.921
_pdbe_chem_comp_rdkit_properties.chi4v 0.431
_pdbe_chem_comp_rdkit_properties.chi0n 17.027
_pdbe_chem_comp_rdkit_properties.chi1n 7.905
_pdbe_chem_comp_rdkit_properties.chi2n 0.515
_pdbe_chem_comp_rdkit_properties.chi3n 0.515
_pdbe_chem_comp_rdkit_properties.chi4n 0.178
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.380
_pdbe_chem_comp_rdkit_properties.kappa1 2.103
_pdbe_chem_comp_rdkit_properties.kappa2 3.853
_pdbe_chem_comp_rdkit_properties.kappa3 6.036
_pdbe_chem_comp_rdkit_properties.Phi 0.737
#
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
PPQ UniChem 'KEGG LIGAND' C04650
PPQ UniChem ChEBI 142852
PPQ UniChem ChEBI 142856
PPQ UniChem ZINC ZINC000000902209
PPQ UniChem fdasrs 72P470U27C
PPQ UniChem Nikkaji J391.973K
PPQ UniChem BRENDA 1796
PPQ UniChem BRENDA 34642
PPQ UniChem CCDC BIPXAZ
PPQ UniChem SureChEMBL SCHEMBL21986
PPQ UniChem 'PubChem TPHARMA' 15219695
PPQ UniChem 'PubChem TPHARMA' 16608385
PPQ UniChem PubChem 6971305
PPQ UniChem PubChem 91619
PPQ UniChem ACTor 35597-44-5
PPQ UniChem BindingDb 50174527
#
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
PPQ NP 2.879 1.448 0.285 ETKDGv3 1
PPQ CAP 1.942 0.323 0.319 ETKDGv3 2
PPQ CBP 0.543 0.754 -0.174 ETKDGv3 3
PPQ CGP -0.508 -0.341 0.047 ETKDGv3 4
PPQ PDP -2.147 0.205 -0.529 ETKDGv3 5
PPQ CEP -3.343 -1.130 -0.252 ETKDGv3 6
PPQ OEA -2.092 0.523 -2.006 ETKDGv3 7
PPQ OEB -2.641 1.575 0.334 ETKDGv3 8
PPQ CP 2.490 -0.811 -0.502 ETKDGv3 9
PPQ OP 2.770 -0.638 -1.720 ETKDGv3 10
PPQ OTP 2.675 -2.061 0.080 ETKDGv3 11
PPQ HNP1 2.861 1.888 -0.664 ETKDGv3 12
PPQ HNP2 2.558 2.172 0.968 ETKDGv3 13
PPQ HAP 1.856 -0.021 1.375 ETKDGv3 14
PPQ HBP1 0.589 1.018 -1.254 ETKDGv3 15
PPQ HBP2 0.233 1.662 0.387 ETKDGv3 16
PPQ HGP1 -0.230 -1.259 -0.512 ETKDGv3 17
PPQ HGP2 -0.576 -0.587 1.128 ETKDGv3 18
PPQ HEP1 -3.028 -2.033 -0.815 ETKDGv3 19
PPQ HEP2 -3.388 -1.368 0.831 ETKDGv3 20
PPQ HEP3 -4.346 -0.808 -0.601 ETKDGv3 21
PPQ HEB -2.134 2.327 -0.064 ETKDGv3 22
PPQ HTP 3.036 -2.837 -0.460 ETKDGv3 23
#