data_ORX # _chem_comp.id ORX _chem_comp.name "N~2~-({3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4-YL}METHYL)-D-ORNITHINE" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C13 H22 N3 O7 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2003-02-10 _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 363.303 _chem_comp.one_letter_code ? _chem_comp.three_letter_code ORX _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 1NJJ _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 ORX OA OA O 0 1 N N N N N N 51.169 78.242 107.905 -2.882 0.408 -0.174 OA ORX 1 ORX CA CA C 0 1 N N N N N N 52.111 79.006 107.293 -2.836 -0.556 -1.106 CA ORX 2 ORX OXT OXT O 0 1 N N N N N N 52.990 78.419 106.425 -3.692 -1.408 -1.137 OXT ORX 3 ORX CAA CAA C 0 1 N N R N N N 52.176 80.533 107.587 -1.716 -0.576 -2.114 CAA ORX 4 ORX NA NA N 0 1 N N N N N N 52.254 81.385 106.274 -0.508 0.008 -1.516 NA ORX 5 ORX C4A C4A C 0 1 N N N N N N 53.533 81.155 105.465 0.227 -1.095 -0.886 C4A ORX 6 ORX C4 C4 C 0 1 Y N N N N N 53.430 81.659 103.972 1.485 -0.561 -0.250 C4 ORX 7 ORX C5 C5 C 0 1 Y N N N N N 54.538 82.236 103.240 1.485 -0.126 1.064 C5 ORX 8 ORX C6 C6 C 0 1 Y N N N N N 54.551 82.711 101.937 2.657 0.357 1.615 C6 ORX 9 ORX N1 N1 N 0 1 Y N N N N N 53.412 82.640 101.181 3.768 0.407 0.907 N1 ORX 10 ORX C2 C2 C 0 1 Y N N N N N 52.239 82.099 101.716 3.810 0.002 -0.347 C2 ORX 11 ORX C3 C3 C 0 1 Y N N N N N 52.263 81.615 103.128 2.673 -0.489 -0.970 C3 ORX 12 ORX O3 O3 O 0 1 N N N N N N 51.057 81.107 103.513 2.721 -0.905 -2.263 O3 ORX 13 ORX C2A C2A C 0 1 N N N N N N 51.165 82.161 100.644 5.106 0.081 -1.112 C2A ORX 14 ORX C5A C5A C 0 1 N N N N N N 55.875 82.395 103.870 0.222 -0.178 1.885 C5A ORX 15 ORX OP4 OP4 O 0 1 N N N N N N 56.367 81.292 104.503 0.484 0.324 3.196 OP4 ORX 16 ORX P P P 0 1 N N N N N N 57.825 81.291 105.089 -0.900 0.240 4.013 P ORX 17 ORX OP1 OP1 O 0 1 N N N N N N 58.122 80.053 105.754 -1.353 -1.167 4.071 OP1 ORX 18 ORX OP2 OP2 O 0 1 N N N N N N 57.910 82.613 105.846 -0.675 0.793 5.508 OP2 ORX 19 ORX OP3 OP3 O 0 1 N N N N N N 58.700 81.302 103.857 -2.015 1.133 3.272 OP3 ORX 20 ORX CBA CBA C 0 1 N N N N N N 53.322 80.774 108.609 -2.122 0.238 -3.344 CBA ORX 21 ORX CGA CGA C 0 1 N N N N N N 52.951 80.590 110.076 -0.984 0.217 -4.368 CGA ORX 22 ORX CDA CDA C 0 1 N N N N N N 53.222 81.858 110.887 -1.390 1.032 -5.597 CDA ORX 23 ORX NE NE N 0 1 N N N N N N 52.887 81.615 112.306 -0.299 1.012 -6.580 NE ORX 24 ORX HOA HOA H 0 1 N N N N N N 50.558 78.649 108.507 -3.601 0.420 0.472 HOA ORX 25 ORX HAA HAA H 0 1 N N N N N N 51.229 80.891 108.055 -1.512 -1.605 -2.411 HAA ORX 26 ORX HNA HNA H 0 1 N N N N N N 52.132 82.376 106.480 -0.818 0.613 -0.770 HNA ORX 27 ORX H4A1 1H4A H 0 0 N N N N N N 54.412 81.611 105.976 0.489 -1.835 -1.642 H4A1 ORX 28 ORX H4A2 2H4A H 0 0 N N N N N N 53.835 80.082 105.500 -0.396 -1.560 -0.123 H4A2 ORX 29 ORX H6 H6 H 0 1 N N N N N N 55.467 83.145 101.502 2.663 0.698 2.640 H6 ORX 30 ORX HO3 HO3 H 0 1 N N N N N N 50.287 81.078 102.956 2.509 -0.137 -2.812 HO3 ORX 31 ORX H2A1 1H2A H 0 0 N N N N N N 50.229 81.729 101.070 5.661 -0.847 -0.983 H2A1 ORX 32 ORX H2A2 2H2A H 0 0 N N N N N N 51.020 83.188 100.236 4.894 0.233 -2.171 H2A2 ORX 33 ORX H2A3 3H2A H 0 0 N N N N N N 51.474 81.666 99.693 5.699 0.915 -0.737 H2A3 ORX 34 ORX H5A1 1H5A H 0 0 N N N N N N 56.610 82.759 103.114 -0.545 0.432 1.409 H5A1 ORX 35 ORX H5A2 2H5A H 0 0 N N N N N N 55.864 83.262 104.571 -0.124 -1.209 1.953 H5A2 ORX 36 ORX HP2 HP2 H 0 1 N N N N N N 58.791 82.612 106.200 -1.527 0.725 5.962 HP2 ORX 37 ORX HP3 HP3 H 0 1 N N N N N N 59.581 81.301 104.211 -1.681 2.040 3.255 HP3 ORX 38 ORX HBA1 1HBA H 0 0 N N N N N N 54.198 80.132 108.355 -2.325 1.267 -3.048 HBA1 ORX 39 ORX HBA2 2HBA H 0 0 N N N N N N 53.763 81.785 108.452 -3.018 -0.196 -3.788 HBA2 ORX 40 ORX HGA1 1HGA H 0 0 N N N N N N 51.894 80.251 110.190 -0.781 -0.811 -4.664 HGA1 ORX 41 ORX HGA2 2HGA H 0 0 N N N N N N 53.465 79.705 110.518 -0.088 0.651 -3.924 HGA2 ORX 42 ORX HDA1 1HDA H 0 0 N N N N N N 54.266 82.226 110.757 -1.594 2.061 -5.301 HDA1 ORX 43 ORX HDA2 2HDA H 0 0 N N N N N N 52.688 82.745 110.473 -2.286 0.598 -6.041 HDA2 ORX 44 ORX HNE1 1HNE H 0 0 N N N N N N 53.067 82.460 112.846 -0.609 1.559 -7.369 HNE1 ORX 45 ORX HNE2 2HNE H 0 0 N N N N N N 53.375 80.803 112.684 0.472 1.513 -6.166 HNE2 ORX 46 # 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 ORX OA CA SING N N 1 ORX OA HOA SING N N 2 ORX CA OXT DOUB N N 3 ORX CA CAA SING N N 4 ORX CAA NA SING N N 5 ORX CAA CBA SING N N 6 ORX CAA HAA SING N N 7 ORX NA C4A SING N N 8 ORX NA HNA SING N N 9 ORX C4A C4 SING N N 10 ORX C4A H4A1 SING N N 11 ORX C4A H4A2 SING N N 12 ORX C4 C5 DOUB Y N 13 ORX C4 C3 SING Y N 14 ORX C5 C6 SING Y N 15 ORX C5 C5A SING N N 16 ORX C6 N1 DOUB Y N 17 ORX C6 H6 SING N N 18 ORX N1 C2 SING Y N 19 ORX C2 C3 DOUB Y N 20 ORX C2 C2A SING N N 21 ORX C3 O3 SING N N 22 ORX O3 HO3 SING N N 23 ORX C2A H2A1 SING N N 24 ORX C2A H2A2 SING N N 25 ORX C2A H2A3 SING N N 26 ORX C5A OP4 SING N N 27 ORX C5A H5A1 SING N N 28 ORX C5A H5A2 SING N N 29 ORX OP4 P SING N N 30 ORX P OP1 DOUB N N 31 ORX P OP2 SING N N 32 ORX P OP3 SING N N 33 ORX OP2 HP2 SING N N 34 ORX OP3 HP3 SING N N 35 ORX CBA CGA SING N N 36 ORX CBA HBA1 SING N N 37 ORX CBA HBA2 SING N N 38 ORX CGA CDA SING N N 39 ORX CGA HGA1 SING N N 40 ORX CGA HGA2 SING N N 41 ORX CDA NE SING N N 42 ORX CDA HDA1 SING N N 43 ORX CDA HDA2 SING N N 44 ORX NE HNE1 SING N N 45 ORX NE HNE2 SING N N 46 # 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 ORX SMILES ACDLabs 10.04 "O=C(O)C(NCc1c(cnc(c1O)C)COP(=O)(O)O)CCCN" ORX SMILES_CANONICAL CACTVS 3.341 "Cc1ncc(CO[P](O)(O)=O)c(CN[C@H](CCCN)C(O)=O)c1O" ORX SMILES CACTVS 3.341 "Cc1ncc(CO[P](O)(O)=O)c(CN[CH](CCCN)C(O)=O)c1O" ORX SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "Cc1c(c(c(cn1)COP(=O)(O)O)CN[C@H](CCCN)C(=O)O)O" ORX SMILES "OpenEye OEToolkits" 1.5.0 "Cc1c(c(c(cn1)COP(=O)(O)O)CNC(CCCN)C(=O)O)O" ORX InChI InChI 1.03 "InChI=1S/C13H22N3O7P/c1-8-12(17)10(6-16-11(13(18)19)3-2-4-14)9(5-15-8)7-23-24(20,21)22/h5,11,16-17H,2-4,6-7,14H2,1H3,(H,18,19)(H2,20,21,22)/t11-/m1/s1" ORX InChIKey InChI 1.03 OIRLUPUXIUAWOH-LLVKDONJSA-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 ORX "SYSTEMATIC NAME" ACDLabs 10.04 "N~2~-({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)-D-ornithine" ORX "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(2R)-5-amino-2-[[3-hydroxy-2-methyl-5-(phosphonooxymethyl)pyridin-4-yl]methylamino]pentanoic 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 ORX "Create component" 2003-02-10 RCSB ORX "Modify descriptor" 2011-06-04 RCSB ORX "Modify PCM" 2024-09-27 PDBE # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id ORX _pdbx_chem_comp_pcm.modified_residue_id LYS _pdbx_chem_comp_pcm.type None _pdbx_chem_comp_pcm.category "Covalent chemical modification" _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 C4A _pdbx_chem_comp_pcm.modified_residue_id_linking_atom NZ _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ? _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ? #