data_1V2E # _model_server_result.job_id jiEkypMg_Oabi2_MGGR_5w _model_server_result.datetime_utc '2024-11-22 06:31:48' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 1v2e # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":510}' # _entry.id 1V2E # _exptl.entry_id 1V2E _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 247.142 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "PYRIDOXAL-5'-PHOSPHATE" _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 120 _cell.entry_id 1V2E _cell.length_a 123.14 _cell.length_b 123.14 _cell.length_c 122.96 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1V2E _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 E N N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order covale ? covale1 A NZ LYS 222 A LYS 222 1_555 C C4A PLP . A PLP 510 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.365 ? covale ? covale2 B NZ LYS 222 B LYS 222 1_555 E C4A PLP . B PLP 1510 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.384 ? # _chem_comp.formula 'C8 H10 N O6 P' _chem_comp.formula_weight 247.142 _chem_comp.id PLP _chem_comp.mon_nstd_flag . _chem_comp.name "PYRIDOXAL-5'-PHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'VITAMIN B6 Phosphate' # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag N1 C2 PLP doub 276 n y N1 C6 PLP sing 277 n y C2 C2A PLP sing 278 n n C2 C3 PLP sing 279 n y C2A H2A1 PLP sing 280 n n C2A H2A2 PLP sing 281 n n C2A H2A3 PLP sing 282 n n C3 O3 PLP sing 283 n n C3 C4 PLP doub 284 n y O3 HO3 PLP sing 285 n n C4 C4A PLP sing 286 n n C4 C5 PLP sing 287 n y C4A O4A PLP doub 288 n n C4A H4A PLP sing 289 n n C5 C6 PLP doub 290 n y C5 C5A PLP sing 291 n n C6 H6 PLP sing 292 n n C5A O4P PLP sing 293 n n C5A H5A1 PLP sing 294 n n C5A H5A2 PLP sing 295 n n O4P P PLP sing 296 n n P O1P PLP doub 297 n n P O2P PLP sing 298 n n P O3P PLP sing 299 n n O2P HOP2 PLP sing 300 n n O3P HOP3 PLP sing 301 n n # _atom_sites.entry_id 1V2E _atom_sites.fract_transf_matrix[1][1] 0.008121 _atom_sites.fract_transf_matrix[1][2] 0.004689 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009377 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.008133 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code C 2 PLP A 1 510 510 PLP PLP . D 3 KMT A 1 520 520 KMT KMT . E 2 PLP B 1 1510 1510 PLP PLP . F 3 KMT B 1 1520 1520 KMT KMT . G 4 HOH A 1 521 2 HOH HOH . G 4 HOH A 2 522 4 HOH HOH . G 4 HOH A 3 523 7 HOH HOH . G 4 HOH A 4 524 8 HOH HOH . G 4 HOH A 5 525 9 HOH HOH . G 4 HOH A 6 526 11 HOH HOH . G 4 HOH A 7 527 13 HOH HOH . G 4 HOH A 8 528 15 HOH HOH . G 4 HOH A 9 529 17 HOH HOH . G 4 HOH A 10 530 18 HOH HOH . G 4 HOH A 11 531 19 HOH HOH . G 4 HOH A 12 532 21 HOH HOH . G 4 HOH A 13 533 22 HOH HOH . G 4 HOH A 14 534 24 HOH HOH . G 4 HOH A 15 535 25 HOH HOH . G 4 HOH A 16 536 26 HOH HOH . G 4 HOH A 17 537 29 HOH HOH . G 4 HOH A 18 538 30 HOH HOH . G 4 HOH A 19 539 31 HOH HOH . G 4 HOH A 20 540 33 HOH HOH . G 4 HOH A 21 541 34 HOH HOH . G 4 HOH A 22 542 35 HOH HOH . G 4 HOH A 23 543 36 HOH HOH . G 4 HOH A 24 544 37 HOH HOH . G 4 HOH A 25 545 38 HOH HOH . G 4 HOH A 26 546 40 HOH HOH . G 4 HOH A 27 547 41 HOH HOH . G 4 HOH A 28 548 43 HOH HOH . G 4 HOH A 29 549 44 HOH HOH . G 4 HOH A 30 550 46 HOH HOH . G 4 HOH A 31 551 48 HOH HOH . G 4 HOH A 32 552 52 HOH HOH . G 4 HOH A 33 553 53 HOH HOH . G 4 HOH A 34 554 56 HOH HOH . G 4 HOH A 35 555 57 HOH HOH . G 4 HOH A 36 556 60 HOH HOH . G 4 HOH A 37 557 61 HOH HOH . G 4 HOH A 38 558 66 HOH HOH . G 4 HOH A 39 559 71 HOH HOH . G 4 HOH A 40 560 72 HOH HOH . G 4 HOH A 41 561 77 HOH HOH . G 4 HOH A 42 562 78 HOH HOH . G 4 HOH A 43 563 80 HOH HOH . G 4 HOH A 44 564 84 HOH HOH . H 4 HOH B 1 1521 1 HOH HOH . H 4 HOH B 2 1522 3 HOH HOH . H 4 HOH B 3 1523 5 HOH HOH . H 4 HOH B 4 1524 6 HOH HOH . H 4 HOH B 5 1525 10 HOH HOH . H 4 HOH B 6 1526 12 HOH HOH . H 4 HOH B 7 1527 14 HOH HOH . H 4 HOH B 8 1528 16 HOH HOH . H 4 HOH B 9 1529 20 HOH HOH . H 4 HOH B 10 1530 23 HOH HOH . H 4 HOH B 11 1531 27 HOH HOH . H 4 HOH B 12 1532 28 HOH HOH . H 4 HOH B 13 1533 32 HOH HOH . H 4 HOH B 14 1534 39 HOH HOH . H 4 HOH B 15 1535 42 HOH HOH . H 4 HOH B 16 1536 45 HOH HOH . H 4 HOH B 17 1537 47 HOH HOH . H 4 HOH B 18 1538 49 HOH HOH . H 4 HOH B 19 1539 50 HOH HOH . H 4 HOH B 20 1540 51 HOH HOH . H 4 HOH B 21 1541 54 HOH HOH . H 4 HOH B 22 1542 55 HOH HOH . H 4 HOH B 23 1543 58 HOH HOH . H 4 HOH B 24 1544 59 HOH HOH . H 4 HOH B 25 1545 62 HOH HOH . H 4 HOH B 26 1546 63 HOH HOH . H 4 HOH B 27 1547 64 HOH HOH . H 4 HOH B 28 1548 65 HOH HOH . H 4 HOH B 29 1549 67 HOH HOH . H 4 HOH B 30 1550 68 HOH HOH . H 4 HOH B 31 1551 69 HOH HOH . H 4 HOH B 32 1552 70 HOH HOH . H 4 HOH B 33 1553 73 HOH HOH . H 4 HOH B 34 1554 74 HOH HOH . H 4 HOH B 35 1555 75 HOH HOH . H 4 HOH B 36 1556 76 HOH HOH . H 4 HOH B 37 1557 79 HOH HOH . H 4 HOH B 38 1558 81 HOH HOH . H 4 HOH B 39 1559 82 HOH HOH . H 4 HOH B 40 1560 83 HOH HOH . H 4 HOH B 41 1561 85 HOH HOH . H 4 HOH B 42 1562 86 HOH HOH . H 4 HOH B 43 1563 87 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 N N1 PLP . . . C 2 62.589 58.995 9.723 1 19.73 ? N1 PLP 510 A 1 HETATM 2 C C2 PLP . . . C 2 63.873 58.618 9.588 1 17.43 ? C2 PLP 510 A 1 HETATM 3 C C2A PLP . . . C 2 64.195 57.569 8.56 1 18.24 ? C2A PLP 510 A 1 HETATM 4 C C3 PLP . . . C 2 64.837 59.189 10.383 1 18.74 ? C3 PLP 510 A 1 HETATM 5 O O3 PLP . . . C 2 66.164 58.807 10.259 1 18.35 ? O3 PLP 510 A 1 HETATM 6 C C4 PLP . . . C 2 64.468 60.159 11.323 1 20.06 ? C4 PLP 510 A 1 HETATM 7 C C4A PLP . . . C 2 65.554 60.842 12.189 1 20.49 ? C4A PLP 510 A 1 HETATM 8 C C5 PLP . . . C 2 63.119 60.524 11.431 1 19.79 ? C5 PLP 510 A 1 HETATM 9 C C6 PLP . . . C 2 62.209 59.932 10.629 1 19.16 ? C6 PLP 510 A 1 HETATM 10 C C5A PLP . . . C 2 62.594 61.562 12.451 1 19.83 ? C5A PLP 510 A 1 HETATM 11 O O4P PLP . . . C 2 62.974 62.929 12.209 1 17.26 ? O4P PLP 510 A 1 HETATM 12 P P PLP . . . C 2 62.555 63.975 13.253 1 19.87 ? P PLP 510 A 1 HETATM 13 O O1P PLP . . . C 2 62.512 65.237 12.515 1 19.73 ? O1P PLP 510 A 1 HETATM 14 O O2P PLP . . . C 2 63.744 63.978 14.289 1 18.23 ? O2P PLP 510 A 1 HETATM 15 O O3P PLP . . . C 2 61.368 63.613 14.068 1 20.74 ? O3P PLP 510 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 296 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 15 #