data_PY6
#
_chem_comp.id PY6
_chem_comp.name "2-[O-PHOSPHONOPYRIDOXYL]-AMINO-HEXANOIC ACID"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C14 H23 N2 O7 P"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms "VITAMIN B6 COMPLEXED WITH 2-AMINO-HEXANOIC ACID"
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 1999-08-18
_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 362.315
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code PY6
_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 1CQ8
_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.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
PY6 N1 N1 N 0 1 Y N N 26.650 3.747 -15.244 -3.763 -0.422 -0.869 N1 PY6 1
PY6 C2 C2 C 0 1 Y N N 26.354 4.903 -15.944 -3.799 -0.014 0.383 C2 PY6 2
PY6 C2A C2A C 0 1 N N N 27.026 4.858 -17.309 -5.092 -0.084 1.153 C2A PY6 3
PY6 C3 C3 C 0 1 Y N N 25.522 5.890 -15.298 -2.659 0.479 1.000 C3 PY6 4
PY6 O3 O3 O 0 1 N N N 25.323 6.956 -16.106 -2.701 0.899 2.292 O3 PY6 5
PY6 C4 C4 C 0 1 Y N N 24.991 5.735 -14.004 -1.471 0.538 0.277 C4 PY6 6
PY6 C4A C4A C 0 1 N N N 24.116 6.792 -13.355 -0.209 1.068 0.908 C4A PY6 7
PY6 C5 C5 C 0 1 Y N N 25.381 4.487 -13.404 -1.479 0.104 -1.038 C5 PY6 8
PY6 C6 C6 C 0 1 Y N N 26.176 3.516 -13.986 -2.654 -0.379 -1.582 C6 PY6 9
PY6 C5A C5A C 0 1 N N N 24.931 4.077 -12.002 -0.218 0.148 -1.862 C5A PY6 10
PY6 O4P O4P O 0 1 N N N 23.812 4.682 -11.459 -0.486 -0.361 -3.170 O4P PY6 11
PY6 P P P 0 1 N N N 22.873 3.959 -10.405 0.895 -0.285 -3.992 P PY6 12
PY6 O1P O1P O 0 1 N N N 22.442 2.672 -10.842 1.921 -1.104 -3.309 O1P PY6 13
PY6 O2P O2P O 0 1 N N N 21.917 5.031 -9.968 0.665 -0.847 -5.483 O2P PY6 14
PY6 O3P O3P O 0 1 N N N 23.782 3.609 -9.273 1.392 1.244 -4.066 O3P PY6 15
PY6 N N N 0 1 N N N 24.595 8.077 -13.998 0.523 -0.037 1.538 N PY6 16
PY6 CA CA C 0 1 N N S 23.535 9.131 -13.920 1.735 0.543 2.131 CA PY6 17
PY6 C C C 0 1 N N N 24.062 10.390 -14.577 2.852 0.514 1.119 C PY6 18
PY6 O O O 0 1 N N N 24.596 10.109 -15.783 3.712 1.362 1.145 O PY6 19
PY6 CB CB C 0 1 N N N 23.122 9.388 -12.472 2.141 -0.270 3.362 CB PY6 20
PY6 CG CG C 0 1 N N N 24.257 9.786 -11.535 1.008 -0.241 4.389 CG PY6 21
PY6 CD CD C 0 1 N N N 23.832 9.744 -10.073 1.414 -1.054 5.619 CD PY6 22
PY6 CE CE C 0 1 N N N 23.836 8.344 -9.482 0.280 -1.025 6.646 CE PY6 23
PY6 OXT OXT O 0 1 N N N 24.011 11.570 -14.050 2.891 -0.452 0.189 OXT PY6 24
PY6 H2A1 1H2A H 0 0 N N N 26.787 5.789 -17.873 -5.644 0.846 1.023 H2A1 PY6 25
PY6 H2A2 2H2A H 0 0 N N N 28.124 4.682 -17.231 -5.691 -0.916 0.782 H2A2 PY6 26
PY6 H2A3 3H2A H 0 0 N N N 26.756 3.939 -17.880 -4.877 -0.235 2.211 H2A3 PY6 27
PY6 HO3 HO3 H 0 1 N N N 24.775 7.605 -15.680 -2.926 1.839 2.272 HO3 PY6 28
PY6 H4A1 1H4A H 0 0 N N N 23.020 6.607 -13.445 -0.465 1.811 1.663 H4A1 PY6 29
PY6 H4A2 2H4A H 0 0 N N N 24.139 6.793 -12.240 0.414 1.527 0.142 H4A2 PY6 30
PY6 H6 H6 H 0 1 N N N 26.426 2.579 -13.459 -2.665 -0.723 -2.606 H6 PY6 31
PY6 H5A1 1H5A H 0 0 N N N 24.790 2.971 -11.977 0.129 1.178 -1.939 H5A1 PY6 32
PY6 H5A2 2H5A H 0 0 N N N 25.786 4.202 -11.297 0.548 -0.460 -1.385 H5A2 PY6 33
PY6 HOP2 2HOP H 0 0 N N N 21.354 4.597 -9.336 1.515 -0.784 -5.940 HOP2 PY6 34
PY6 HOP3 3HOP H 0 0 N N N 23.219 3.175 -8.641 0.697 1.742 -4.517 HOP3 PY6 35
PY6 HN2 HN2 H 0 1 N N N 24.909 7.926 -14.956 0.827 -0.646 0.793 HN2 PY6 36
PY6 HA HA H 0 1 N N N 22.620 8.787 -14.457 1.538 1.573 2.425 HA PY6 37
PY6 HB1 1HB H 0 1 N N N 22.308 10.149 -12.434 3.041 0.160 3.801 HB1 PY6 38
PY6 HB2 2HB H 0 1 N N N 22.580 8.502 -12.064 2.339 -1.300 3.067 HB2 PY6 39
PY6 HG1 HG1 H 0 1 N N N 25.164 9.161 -11.710 0.108 -0.672 3.949 HG1 PY6 40
PY6 HG2 HG2 H 0 1 N N N 24.674 10.783 -11.806 0.810 0.789 4.683 HG2 PY6 41
PY6 HD1 HD1 H 0 1 N N N 24.457 10.433 -9.459 2.313 -0.623 6.059 HD1 PY6 42
PY6 HD2 HD2 H 0 1 N N N 22.836 10.227 -9.937 1.611 -2.085 5.325 HD2 PY6 43
PY6 HE1 HE1 H 0 1 N N N 23.524 8.313 -8.411 0.569 -1.605 7.523 HE1 PY6 44
PY6 HE2 HE2 H 0 1 N N N 23.210 7.654 -10.095 0.083 0.004 6.941 HE2 PY6 45
PY6 HE3 HE3 H 0 1 N N N 24.831 7.860 -9.618 -0.619 -1.456 6.207 HE3 PY6 46
PY6 HXT HXT H 0 1 N N N 24.341 12.359 -14.462 3.607 -0.470 -0.459 HXT PY6 47
# #
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
PY6 N1 C2 DOUB Y N 1
PY6 N1 C6 SING Y N 2
PY6 C2 C2A SING N N 3
PY6 C2 C3 SING Y N 4
PY6 C2A H2A1 SING N N 5
PY6 C2A H2A2 SING N N 6
PY6 C2A H2A3 SING N N 7
PY6 C3 O3 SING N N 8
PY6 C3 C4 DOUB Y N 9
PY6 O3 HO3 SING N N 10
PY6 C4 C4A SING N N 11
PY6 C4 C5 SING Y N 12
PY6 C4A N SING N N 13
PY6 C4A H4A1 SING N N 14
PY6 C4A H4A2 SING N N 15
PY6 C5 C6 DOUB Y N 16
PY6 C5 C5A SING N N 17
PY6 C6 H6 SING N N 18
PY6 C5A O4P SING N N 19
PY6 C5A H5A1 SING N N 20
PY6 C5A H5A2 SING N N 21
PY6 O4P P SING N N 22
PY6 P O1P DOUB N N 23
PY6 P O2P SING N N 24
PY6 P O3P SING N N 25
PY6 O2P HOP2 SING N N 26
PY6 O3P HOP3 SING N N 27
PY6 N CA SING N N 28
PY6 N HN2 SING N N 29
PY6 CA C SING N N 30
PY6 CA CB SING N N 31
PY6 CA HA SING N N 32
PY6 C O DOUB N N 33
PY6 C OXT SING N N 34
PY6 CB CG SING N N 35
PY6 CB HB1 SING N N 36
PY6 CB HB2 SING N N 37
PY6 CG CD SING N N 38
PY6 CG HG1 SING N N 39
PY6 CG HG2 SING N N 40
PY6 CD CE SING N N 41
PY6 CD HD1 SING N N 42
PY6 CD HD2 SING N N 43
PY6 CE HE1 SING N N 44
PY6 CE HE2 SING N N 45
PY6 CE HE3 SING N N 46
PY6 OXT HXT SING N N 47
# #
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
PY6 SMILES ACDLabs 10.04 "O=C(O)C(NCc1c(cnc(c1O)C)COP(=O)(O)O)CCCC"
PY6 SMILES_CANONICAL CACTVS 3.341 "CCCC[C@H](NCc1c(O)c(C)ncc1CO[P](O)(O)=O)C(O)=O"
PY6 SMILES CACTVS 3.341 "CCCC[CH](NCc1c(O)c(C)ncc1CO[P](O)(O)=O)C(O)=O"
PY6 SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "CCCC[C@@H](C(=O)O)NCc1c(cnc(c1O)C)COP(=O)(O)O"
PY6 SMILES "OpenEye OEToolkits" 1.5.0 "CCCCC(C(=O)O)NCc1c(cnc(c1O)C)COP(=O)(O)O"
PY6 InChI InChI 1.03 "InChI=1S/C14H23N2O7P/c1-3-4-5-12(14(18)19)16-7-11-10(8-23-24(20,21)22)6-15-9(2)13(11)17/h6,12,16-17H,3-5,7-8H2,1-2H3,(H,18,19)(H2,20,21,22)/t12-/m0/s1"
PY6 InChIKey InChI 1.03 NHVFCSUYJRWFNW-LBPRGKRZSA-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
PY6 "SYSTEMATIC NAME" ACDLabs 10.04 "N-({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)-L-norleucine"
PY6 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(2S)-2-[[3-hydroxy-2-methyl-5-(phosphonooxymethyl)pyridin-4-yl]methylamino]hexanoic 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
PY6 "Create component" 1999-08-18 RCSB
PY6 "Modify descriptor" 2011-06-04 RCSB
PY6 "Modify synonyms" 2020-06-05 PDBE
#
_pdbx_chem_comp_synonyms.ordinal 1
_pdbx_chem_comp_synonyms.comp_id PY6
_pdbx_chem_comp_synonyms.name "VITAMIN B6 COMPLEXED WITH 2-AMINO-HEXANOIC ACID"
_pdbx_chem_comp_synonyms.provenance ?
_pdbx_chem_comp_synonyms.type ?
##