data_O77
#
_chem_comp.id O77
_chem_comp.name N-[(3S)-3-amino-3-carboxypropyl]-L-histidine
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C10 H16 N4 O4"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2019-06-17
_chem_comp.pdbx_modified_date 2019-10-25
_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 256.258
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code O77
_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 6PBN
_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
O77 C02 C1 C 0 1 N N N N N N 62.958 40.217 15.659 -1.621 -2.598 0.094 C02 O77 1
O77 C03 C2 C 0 1 N N S N N N 64.371 40.235 16.231 -1.610 -1.093 0.178 C03 O77 2
O77 C04 C3 C 0 1 N N N N N N 65.123 39.559 15.086 -2.864 -0.536 -0.498 C04 O77 3
O77 C05 C4 C 0 1 Y N N N N N 66.619 39.630 15.260 -2.915 0.958 -0.308 C05 O77 4
O77 C06 C5 C 0 1 Y N N N N N 67.290 40.080 16.378 -2.309 1.886 -1.074 C06 O77 5
O77 C08 C6 C 0 1 Y N N N N N 68.711 39.467 14.889 -3.369 2.951 0.475 C08 O77 6
O77 C11 C7 C 0 1 N N N N N N 63.373 39.874 18.340 0.743 -0.569 0.401 C11 O77 7
O77 C12 C8 C 0 1 N N N N N N 63.706 39.387 19.750 1.965 -0.023 -0.340 C12 O77 8
O77 C13 C9 C 0 1 N N S N N N 64.737 40.373 20.305 3.172 -0.018 0.601 C13 O77 9
O77 C15 C10 C 0 1 N N N N N N 64.330 40.849 21.688 4.402 0.403 -0.162 C15 O77 10
O77 N07 N1 N 0 1 Y N N N N N 68.578 39.963 16.114 -2.604 3.095 -0.571 N07 O77 11
O77 N09 N2 N 0 1 Y N N N N N 67.517 39.264 14.357 -3.592 1.633 0.671 N09 O77 12
O77 N10 N3 N 0 1 N N N N N N 64.441 39.463 17.440 -0.416 -0.574 -0.501 N10 O77 13
O77 N14 N4 N 0 1 N N N N N N 66.046 39.738 20.276 2.932 0.924 1.701 N14 O77 14
O77 O01 O1 O 0 1 N N N N N N 62.369 39.128 15.764 -2.625 -3.293 0.650 O01 O77 15
O77 O16 O2 O 0 1 N N N N N N 63.734 40.099 22.510 5.049 -0.484 -0.934 O16 O77 16
O77 O17 O3 O 0 1 N N N N N N 64.596 42.032 21.996 4.805 1.539 -0.079 O17 O77 17
O77 O18 O4 O 0 1 N N N N N N 62.438 41.205 15.080 -0.728 -3.178 -0.477 O18 O77 18
O77 H031 H1 H 0 0 N N N N N N 64.723 41.267 16.375 -1.595 -0.787 1.224 H031 O77 19
O77 H041 H2 H 0 0 N N N N N N 64.853 40.057 14.143 -2.835 -0.766 -1.564 H041 O77 20
O77 H042 H3 H 0 0 N N N N N N 64.822 38.502 15.041 -3.749 -0.989 -0.053 H042 O77 21
O77 H061 H4 H 0 0 N N N N N N 66.848 40.454 17.290 -1.694 1.691 -1.939 H061 O77 22
O77 H081 H5 H 0 0 N N N N N N 69.652 39.261 14.401 -3.763 3.753 1.082 H081 O77 23
O77 H112 H6 H 0 0 N N N N N N 63.288 40.971 18.338 0.946 -1.586 0.737 H112 O77 24
O77 H111 H7 H 0 0 N N N N N N 62.421 39.432 18.011 0.529 0.062 1.264 H111 O77 25
O77 H121 H8 H 0 0 N N N N N N 62.802 39.386 20.377 2.179 -0.654 -1.202 H121 O77 26
O77 H122 H9 H 0 0 N N N N N N 64.129 38.372 19.714 1.762 0.994 -0.675 H122 O77 27
O77 H131 H10 H 0 0 N N N N N N 64.755 41.248 19.639 3.321 -1.019 1.006 H131 O77 28
O77 H091 H12 H 0 0 N N N N N N 67.328 38.902 13.444 -4.127 1.239 1.378 H091 O77 29
O77 H2 H13 H 0 1 N N N N N N 64.339 38.492 17.222 -0.219 -1.100 -1.340 H2 O77 30
O77 H3 H15 H 0 1 N N N N N N 66.732 40.370 20.636 3.686 0.899 2.371 H3 O77 31
O77 H141 H16 H 0 0 N N N N N N 66.028 38.911 20.838 2.790 1.860 1.351 H141 O77 32
O77 H4 H18 H 0 1 N N N N N N 61.515 39.188 15.352 -2.589 -4.257 0.571 H4 O77 33
O77 H5 H19 H 0 1 N N N N N N 63.559 40.581 23.310 5.832 -0.167 -1.404 H5 O77 34
#
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
O77 N09 C08 SING Y N 1
O77 N09 C05 SING Y N 2
O77 C08 N07 DOUB Y N 3
O77 O18 C02 DOUB N N 4
O77 C04 C05 SING N N 5
O77 C04 C03 SING N N 6
O77 C05 C06 DOUB Y N 7
O77 C02 O01 SING N N 8
O77 C02 C03 SING N N 9
O77 N07 C06 SING Y N 10
O77 C03 N10 SING N N 11
O77 N10 C11 SING N N 12
O77 C11 C12 SING N N 13
O77 C12 C13 SING N N 14
O77 N14 C13 SING N N 15
O77 C13 C15 SING N N 16
O77 C15 O17 DOUB N N 17
O77 C15 O16 SING N N 18
O77 C03 H031 SING N N 19
O77 C04 H041 SING N N 20
O77 C04 H042 SING N N 21
O77 C06 H061 SING N N 22
O77 C08 H081 SING N N 23
O77 C11 H112 SING N N 24
O77 C11 H111 SING N N 25
O77 C12 H121 SING N N 26
O77 C12 H122 SING N N 27
O77 C13 H131 SING N N 28
O77 N09 H091 SING N N 29
O77 N10 H2 SING N N 30
O77 N14 H3 SING N N 31
O77 N14 H141 SING N N 32
O77 O01 H4 SING N N 33
O77 O16 H5 SING N N 34
#
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
O77 SMILES ACDLabs 12.01 C(O)(C(NCCC(C(=O)O)N)Cc1cncn1)=O
O77 InChI InChI 1.03 InChI=1S/C10H16N4O4/c11-7(9(15)16)1-2-13-8(10(17)18)3-6-4-12-5-14-6/h4-5,7-8,13H,1-3,11H2,(H,12,14)(H,15,16)(H,17,18)/t7-,8-/m0/s1
O77 InChIKey InChI 1.03 PQUPEWJRDBYFHU-YUMQZZPRSA-N
O77 SMILES_CANONICAL CACTVS 3.385 N[C@@H](CCN[C@@H](Cc1[nH]cnc1)C(O)=O)C(O)=O
O77 SMILES CACTVS 3.385 N[CH](CCN[CH](Cc1[nH]cnc1)C(O)=O)C(O)=O
O77 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 c1c([nH]cn1)C[C@@H](C(=O)O)NCC[C@@H](C(=O)O)N
O77 SMILES "OpenEye OEToolkits" 2.0.7 c1c([nH]cn1)CC(C(=O)O)NCCC(C(=O)O)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
O77 "SYSTEMATIC NAME" ACDLabs 12.01 N-[(3S)-3-amino-3-carboxypropyl]-L-histidine
O77 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(2~{S})-2-azanyl-4-[[(2~{S})-3-(1~{H}-imidazol-5-yl)-1-oxidanyl-1-oxidanylidene-propan-2-yl]amino]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
O77 'Create component' 2019-06-17 RCSB
O77 'Initial release' 2019-10-30 RCSB
#
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
O77 C02 C 10.445 2.849 1
O77 C03 C 10.133 1.382 2
O77 C04 C 11.248 0.378 3
O77 C05 C 12.674 0.842 4
O77 C06 C 13.138 2.268 5
O77 C08 C 15.101 0.842 6
O77 C11 C 7.280 0.455 7
O77 C12 C 6.968 -1.012 8
O77 C13 C 5.541 -1.476 9
O77 C15 C 4.427 -0.472 10
O77 N07 N 14.638 2.268 11
O77 N09 N 13.888 -0.040 12
O77 N10 N 8.706 0.918 13
O77 N14 N 5.229 -2.943 14
O77 O01 O 9.330 3.853 15
O77 O16 O 4.739 0.995 16
O77 O17 O 3.000 -0.936 17
O77 O18 O 11.871 3.313 18
#
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
O77 N09 C08 SINGLE NONE 1
O77 N09 C05 SINGLE NONE 2
O77 C08 N07 DOUBLE NONE 3
O77 O18 C02 DOUBLE NONE 4
O77 C04 C05 SINGLE NONE 5
O77 C03 C04 SINGLE BEGINDASH 6
O77 C05 C06 DOUBLE NONE 7
O77 C02 O01 SINGLE NONE 8
O77 C02 C03 SINGLE NONE 9
O77 N07 C06 SINGLE NONE 10
O77 C03 N10 SINGLE NONE 11
O77 N10 C11 SINGLE NONE 12
O77 C11 C12 SINGLE NONE 13
O77 C12 C13 SINGLE NONE 14
O77 C13 N14 SINGLE BEGINDASH 15
O77 C13 C15 SINGLE NONE 16
O77 C15 O17 DOUBLE NONE 17
O77 C15 O16 SINGLE NONE 18
#
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
O77 MurckoScaffold S1 scaffold 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
O77 imidazole F1 fragment 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
O77 peptide F2 fragment NCC=O InChI=1S/C2H5NO/c3-1-2-4/h2H,1,3H2 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
O77 C05 S1 1
O77 C06 S1 1
O77 C08 S1 1
O77 N07 S1 1
O77 N09 S1 1
O77 C05 F1 1
O77 C06 F1 1
O77 N07 F1 1
O77 C08 F1 1
O77 N09 F1 1
O77 O17 F2 1
O77 C15 F2 1
O77 C13 F2 1
O77 N14 F2 1
O77 O18 F2 2
O77 C02 F2 2
O77 C03 F2 2
O77 N10 F2 2
#
_pdbe_chem_comp_rdkit_properties.comp_id O77
_pdbe_chem_comp_rdkit_properties.exactmw 256.117
_pdbe_chem_comp_rdkit_properties.amw 256.262
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 8
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 6
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 9
_pdbe_chem_comp_rdkit_properties.NumHBD 5
_pdbe_chem_comp_rdkit_properties.NumHBA 7
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 18
_pdbe_chem_comp_rdkit_properties.NumAtoms 34
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 8
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.500
_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 1
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 1
_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 126.101
_pdbe_chem_comp_rdkit_properties.tpsa 141.330
_pdbe_chem_comp_rdkit_properties.CrippenClogP -1.258
_pdbe_chem_comp_rdkit_properties.CrippenMR 61.680
_pdbe_chem_comp_rdkit_properties.chi0v 8.422
_pdbe_chem_comp_rdkit_properties.chi1v 4.132
_pdbe_chem_comp_rdkit_properties.chi2v 1.339
_pdbe_chem_comp_rdkit_properties.chi3v 1.339
_pdbe_chem_comp_rdkit_properties.chi4v 0.658
_pdbe_chem_comp_rdkit_properties.chi0n 24.422
_pdbe_chem_comp_rdkit_properties.chi1n 11.737
_pdbe_chem_comp_rdkit_properties.chi2n 1.339
_pdbe_chem_comp_rdkit_properties.chi3n 1.339
_pdbe_chem_comp_rdkit_properties.chi4n 0.658
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.930
_pdbe_chem_comp_rdkit_properties.kappa1 3.548
_pdbe_chem_comp_rdkit_properties.kappa2 6.720
_pdbe_chem_comp_rdkit_properties.kappa3 4.516
_pdbe_chem_comp_rdkit_properties.Phi 1.325
#
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
O77 UniChem PDBe O77
O77 UniChem ChEBI 143196
O77 UniChem PubChem 134820210
O77 UniChem PubChem 134820211
O77 UniChem BRENDA 262006
O77 UniChem Rhea 143196
#
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
O77 C02 1.211 -0.988 1.680 ETKDGv3 1
O77 C03 1.066 -1.118 0.181 ETKDGv3 2
O77 C04 1.717 0.054 -0.584 ETKDGv3 3
O77 C05 3.212 0.026 -0.460 ETKDGv3 4
O77 C06 3.939 0.712 0.406 ETKDGv3 5
O77 C08 5.347 -0.536 -0.669 ETKDGv3 6
O77 C11 -1.269 -0.291 0.278 ETKDGv3 7
O77 C12 -2.622 -0.427 -0.431 ETKDGv3 8
O77 C13 -3.660 0.593 0.086 ETKDGv3 9
O77 C15 -3.264 2.001 -0.261 ETKDGv3 10
O77 N07 5.314 0.357 0.269 ETKDGv3 11
O77 N09 4.063 -0.829 -1.204 ETKDGv3 12
O77 N10 -0.339 -1.313 -0.231 ETKDGv3 13
O77 N14 -4.986 0.315 -0.468 ETKDGv3 14
O77 O01 1.111 0.258 2.294 ETKDGv3 15
O77 O16 -3.158 2.388 -1.594 ETKDGv3 16
O77 O17 -3.021 2.833 0.654 ETKDGv3 17
O77 O18 1.381 -2.019 2.384 ETKDGv3 18
O77 H031 1.619 -2.037 -0.123 ETKDGv3 19
O77 H041 1.337 1.034 -0.223 ETKDGv3 20
O77 H042 1.458 -0.026 -1.661 ETKDGv3 21
O77 H061 3.560 1.423 1.129 ETKDGv3 22
O77 H081 6.261 -1.008 -1.004 ETKDGv3 23
O77 H112 -0.871 0.726 0.089 ETKDGv3 24
O77 H111 -1.419 -0.421 1.373 ETKDGv3 25
O77 H121 -3.010 -1.454 -0.257 ETKDGv3 26
O77 H122 -2.478 -0.302 -1.528 ETKDGv3 27
O77 H131 -3.724 0.502 1.195 ETKDGv3 28
O77 H091 3.809 -1.523 -1.942 ETKDGv3 29
O77 H2 -0.656 -2.246 0.125 ETKDGv3 30
O77 H3 -5.309 -0.615 -0.115 ETKDGv3 31
O77 H141 -4.922 0.246 -1.511 ETKDGv3 32
O77 H4 1.191 0.350 3.300 ETKDGv3 33
O77 H5 -2.888 3.333 -1.841 ETKDGv3 34
#