data_2GEU # _model_server_result.job_id MhujgyT9Il6jPjeKCsCyyw _model_server_result.datetime_utc '2024-10-11 15:25:45' _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 2geu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 2GEU # _exptl.entry_id 2GEU _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 843.652 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-4-HYDROXY-3-(PHOSPHONOOXY)TETRAHYDROFURAN-2-YL]METHYL (3R)-3-HYDROXY-4-{[3-({2-[(2-HYDROXYETHYL)DITHIO]ETHYL}AMINO)-3-OXOPROPYL]AMINO}-2,2-DIMETHYL-4-OXOBUTYL DIHYDROGEN DIPHOSPHATE' _entity.pdbx_number_of_molecules 1 _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 2GEU _cell.length_a 107.634 _cell.length_b 107.634 _cell.length_c 89.85 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2GEU _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,PQS _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 6_765 -x+2,-x+y+1,-z+1/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 161.451 93.213778 29.95 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 C ALA 172 A ALA 172 1_555 A N CME 173 A CME 173 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale2 A C CME 173 A CME 173 1_555 A N ALA 174 A ALA 174 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? # _chem_comp.formula 'C23 H40 N7 O17 P3 S2' _chem_comp.formula_weight 843.652 _chem_comp.id COK _chem_comp.mon_nstd_flag . _chem_comp.name '[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-4-HYDROXY-3-(PHOSPHONOOXY)TETRAHYDROFURAN-2-YL]METHYL (3R)-3-HYDROXY-4-{[3-({2-[(2-HYDROXYETHYL)DITHIO]ETHYL}AMINO)-3-OXOPROPYL]AMINO}-2,2-DIMETHYL-4-OXOBUTYL DIHYDROGEN DIPHOSPHATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'S-(THIOETHYLHYDROXY)COENZYME A' # 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 N6A C6A COK sing 91 n n N6A HN61 COK sing 92 n n N6A HN62 COK sing 93 n n C6A N1A COK sing 94 n y C6A C5A COK doub 95 n y N1A C2A COK doub 96 n y C2A N3A COK sing 97 n y C2A H2 COK sing 98 n n N3A C4A COK doub 99 n y C4A C5A COK sing 100 n y C4A N9A COK sing 101 n y C5A N7A COK sing 102 n y N7A C8A COK doub 103 n y C8A N9A COK sing 104 n y C8A H8 COK sing 105 n n N9A C1B COK sing 106 n n C1B O4B COK sing 107 n n C1B C2B COK sing 108 n n C1B H1' COK sing 109 n n O4B C4B COK sing 110 n n C2B O2B COK sing 111 n n C2B C3B COK sing 112 n n C2B H2' COK sing 113 n n O2B H3 COK sing 114 n n C3B O3B COK sing 115 n n C3B C4B COK sing 116 n n C3B H3' COK sing 117 n n O3B P3B COK sing 118 n n P3B O8A COK doub 119 n n P3B O9A COK sing 120 n n P3B O7A COK sing 121 n n O9A HO9 COK sing 122 n n O7A HO7 COK sing 123 n n C4B C5B COK sing 124 n n C4B H4' COK sing 125 n n C5B O5B COK sing 126 n n C5B "H5'1" COK sing 127 n n C5B "H5'2" COK sing 128 n n O5B P1A COK sing 129 n n P1A O1A COK doub 130 n n P1A O2A COK sing 131 n n P1A O3A COK sing 132 n n O2A HO2 COK sing 133 n n O3A P2A COK sing 134 n n P2A O4A COK doub 135 n n P2A O5A COK sing 136 n n P2A O6A COK sing 137 n n O5A HO5 COK sing 138 n n O6A CCP COK sing 139 n n CCP CBP COK sing 140 n n CCP H121 COK sing 141 n n CCP H122 COK sing 142 n n CBP CDP COK sing 143 n n CBP CEP COK sing 144 n n CBP CAP COK sing 145 n n CDP H131 COK sing 146 n n CDP H132 COK sing 147 n n CDP H133 COK sing 148 n n CEP H141 COK sing 149 n n CEP H142 COK sing 150 n n CEP H143 COK sing 151 n n CAP OAP COK sing 152 n n CAP C9P COK sing 153 n n CAP H10 COK sing 154 n n OAP H1 COK sing 155 n n C9P O9P COK doub 156 n n C9P N8P COK sing 157 n n N8P C7P COK sing 158 n n N8P HN8 COK sing 159 n n C7P C6P COK sing 160 n n C7P H71 COK sing 161 n n C7P H72 COK sing 162 n n C6P C5P COK sing 163 n n C6P H61 COK sing 164 n n C6P H62 COK sing 165 n n C5P O5P COK doub 166 n n C5P N4P COK sing 167 n n N4P C3P COK sing 168 n n N4P HN4 COK sing 169 n n C3P C2P COK sing 170 n n C3P H31 COK sing 171 n n C3P H32 COK sing 172 n n C2P S1P COK sing 173 n n C2P H21 COK sing 174 n n C2P H22 COK sing 175 n n S1P S49 COK sing 176 n n S49 C50 COK sing 177 n n C50 C51 COK sing 178 n n C50 H501 COK sing 179 n n C50 H502 COK sing 180 n n C51 O52 COK sing 181 n n C51 H511 COK sing 182 n n C51 H512 COK sing 183 n n O52 H52 COK sing 184 n n # _atom_sites.entry_id 2GEU _atom_sites.fract_transf_matrix[1][1] 0.009291 _atom_sites.fract_transf_matrix[1][2] 0.005364 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010728 _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] 0.01113 _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 B 2 COK A 1 401 401 COK COA . C 3 HOH A 1 501 501 HOH HOH . C 3 HOH A 2 502 502 HOH HOH . C 3 HOH A 3 503 503 HOH HOH . C 3 HOH A 4 504 504 HOH HOH . C 3 HOH A 5 505 505 HOH HOH . C 3 HOH A 6 506 506 HOH HOH . C 3 HOH A 7 507 507 HOH HOH . C 3 HOH A 8 508 508 HOH HOH . C 3 HOH A 9 509 509 HOH HOH . C 3 HOH A 10 510 510 HOH HOH . C 3 HOH A 11 511 511 HOH HOH . C 3 HOH A 12 512 512 HOH HOH . C 3 HOH A 13 513 513 HOH HOH . C 3 HOH A 14 514 514 HOH HOH . C 3 HOH A 15 516 516 HOH HOH . C 3 HOH A 16 517 517 HOH HOH . C 3 HOH A 17 518 518 HOH HOH . C 3 HOH A 18 519 519 HOH HOH . C 3 HOH A 19 520 520 HOH HOH . C 3 HOH A 20 521 521 HOH HOH . C 3 HOH A 21 522 522 HOH HOH . C 3 HOH A 22 523 523 HOH HOH . C 3 HOH A 23 524 524 HOH HOH . C 3 HOH A 24 525 525 HOH HOH . C 3 HOH A 25 526 526 HOH HOH . C 3 HOH A 26 527 527 HOH HOH . C 3 HOH A 27 528 528 HOH HOH . C 3 HOH A 28 529 529 HOH HOH . C 3 HOH A 29 530 530 HOH HOH . C 3 HOH A 30 531 531 HOH HOH . C 3 HOH A 31 532 532 HOH HOH . C 3 HOH A 32 533 533 HOH HOH . C 3 HOH A 33 534 534 HOH HOH . C 3 HOH A 34 535 535 HOH HOH . C 3 HOH A 35 536 536 HOH HOH . C 3 HOH A 36 537 537 HOH HOH . C 3 HOH A 37 538 538 HOH HOH . C 3 HOH A 38 539 539 HOH HOH . C 3 HOH A 39 540 540 HOH HOH . C 3 HOH A 40 541 541 HOH HOH . C 3 HOH A 41 542 542 HOH HOH . C 3 HOH A 42 543 543 HOH HOH . C 3 HOH A 43 544 544 HOH HOH . C 3 HOH A 44 545 545 HOH HOH . C 3 HOH A 45 546 546 HOH HOH . C 3 HOH A 46 547 547 HOH HOH . C 3 HOH A 47 548 548 HOH HOH . C 3 HOH A 48 549 549 HOH HOH . C 3 HOH A 49 550 550 HOH HOH . C 3 HOH A 50 551 551 HOH HOH . C 3 HOH A 51 552 552 HOH HOH . C 3 HOH A 52 553 553 HOH HOH . C 3 HOH A 53 554 554 HOH HOH . C 3 HOH A 54 555 555 HOH HOH . C 3 HOH A 55 556 556 HOH HOH . C 3 HOH A 56 557 557 HOH HOH . C 3 HOH A 57 558 558 HOH HOH . C 3 HOH A 58 559 559 HOH HOH . C 3 HOH A 59 560 560 HOH HOH . C 3 HOH A 60 561 561 HOH HOH . C 3 HOH A 61 562 562 HOH HOH . C 3 HOH A 62 563 563 HOH HOH . C 3 HOH A 63 564 564 HOH HOH . C 3 HOH A 64 565 565 HOH HOH . C 3 HOH A 65 566 566 HOH HOH . C 3 HOH A 66 567 567 HOH HOH . C 3 HOH A 67 568 568 HOH HOH . C 3 HOH A 68 569 569 HOH HOH . C 3 HOH A 69 570 570 HOH HOH . C 3 HOH A 70 571 571 HOH HOH . C 3 HOH A 71 572 572 HOH HOH . C 3 HOH A 72 573 573 HOH HOH . C 3 HOH A 73 574 574 HOH HOH . C 3 HOH A 74 575 575 HOH HOH . C 3 HOH A 75 576 576 HOH HOH . C 3 HOH A 76 577 577 HOH HOH . C 3 HOH A 77 578 578 HOH HOH . C 3 HOH A 78 579 579 HOH HOH . C 3 HOH A 79 580 580 HOH HOH . C 3 HOH A 80 581 581 HOH HOH . C 3 HOH A 81 582 582 HOH HOH . C 3 HOH A 82 583 583 HOH HOH . C 3 HOH A 83 584 584 HOH HOH . C 3 HOH A 84 585 585 HOH HOH . C 3 HOH A 85 586 586 HOH HOH . C 3 HOH A 86 587 587 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 N6A COK . . . B 2 57.784 34.113 -1.192 1 54.03 ? N6A COK 401 A 1 HETATM 2 C C6A COK . . . B 2 58.394 32.966 -1.494 1 54.03 ? C6A COK 401 A 1 HETATM 3 N N1A COK . . . B 2 57.673 31.875 -1.795 1 54.03 ? N1A COK 401 A 1 HETATM 4 C C2A COK . . . B 2 58.259 30.723 -2.072 1 54.03 ? C2A COK 401 A 1 HETATM 5 N N3A COK . . . B 2 59.577 30.605 -2.062 1 54.03 ? N3A COK 401 A 1 HETATM 6 C C4A COK . . . B 2 60.361 31.651 -1.772 1 54.03 ? C4A COK 401 A 1 HETATM 7 C C5A COK . . . B 2 59.776 32.88 -1.478 1 54.03 ? C5A COK 401 A 1 HETATM 8 N N7A COK . . . B 2 60.763 33.738 -1.224 1 54.03 ? N7A COK 401 A 1 HETATM 9 C C8A COK . . . B 2 61.913 33.082 -1.346 1 54.03 ? C8A COK 401 A 1 HETATM 10 N N9A COK . . . B 2 61.678 31.813 -1.675 1 54.03 ? N9A COK 401 A 1 HETATM 11 C C1B COK . . . B 2 62.699 30.75 -1.817 1 54.03 ? C1B COK 401 A 1 HETATM 12 O O4B COK . . . B 2 63.43 30.576 -0.59 1 54.03 ? O4B COK 401 A 1 HETATM 13 C C2B COK . . . B 2 63.776 31.069 -2.854 1 54.03 ? C2B COK 401 A 1 HETATM 14 O O2B COK . . . B 2 63.275 30.803 -4.166 1 54.03 ? O2B COK 401 A 1 HETATM 15 C C3B COK . . . B 2 64.821 30.036 -2.44 1 54.03 ? C3B COK 401 A 1 HETATM 16 O O3B COK . . . B 2 64.437 28.73 -2.881 1 54.03 ? O3B COK 401 A 1 HETATM 17 P P3B COK . . . B 2 65.433 27.788 -3.728 1 54.03 ? P3B COK 401 A 1 HETATM 18 O O8A COK . . . B 2 64.895 27.828 -5.245 1 54.03 ? O8A COK 401 A 1 HETATM 19 O O9A COK . . . B 2 65.187 26.291 -3.19 1 54.03 ? O9A COK 401 A 1 HETATM 20 O O7A COK . . . B 2 66.852 28.196 -3.634 1 54.03 ? O7A COK 401 A 1 HETATM 21 C C4B COK . . . B 2 64.764 30.138 -0.912 1 54.03 ? C4B COK 401 A 1 HETATM 22 C C5B COK . . . B 2 65.743 31.179 -0.361 1 54.03 ? C5B COK 401 A 1 HETATM 23 O O5B COK . . . B 2 65.459 32.492 -0.854 1 54.03 ? O5B COK 401 A 1 HETATM 24 P P1A COK . . . B 2 66.56 33.66 -0.727 1 54.03 ? P1A COK 401 A 1 HETATM 25 O O1A COK . . . B 2 66.54 34.445 -1.983 1 54.03 ? O1A COK 401 A 1 HETATM 26 O O2A COK . . . B 2 67.839 33.036 -0.324 1 54.03 ? O2A COK 401 A 1 HETATM 27 O O3A COK . . . B 2 65.989 34.595 0.456 1 54.03 ? O3A COK 401 A 1 HETATM 28 P P2A COK . . . B 2 66.205 34.323 2.032 1 54.03 ? P2A COK 401 A 1 HETATM 29 O O4A COK . . . B 2 67.623 34.536 2.391 1 54.03 ? O4A COK 401 A 1 HETATM 30 O O5A COK . . . B 2 65.586 33.016 2.357 1 54.03 ? O5A COK 401 A 1 HETATM 31 O O6A COK . . . B 2 65.32 35.504 2.673 1 54.03 ? O6A COK 401 A 1 HETATM 32 C CCP COK . . . B 2 63.958 35.245 3.018 1 54.03 ? CCP COK 401 A 1 HETATM 33 C CBP COK . . . B 2 63.161 36.528 3.261 1 54.03 ? CBP COK 401 A 1 HETATM 34 C CDP COK . . . B 2 63.883 37.358 4.325 1 54.03 ? CDP COK 401 A 1 HETATM 35 C CEP COK . . . B 2 61.772 36.127 3.763 1 54.03 ? CEP COK 401 A 1 HETATM 36 C CAP COK . . . B 2 63.059 37.335 1.963 1 54.03 ? CAP COK 401 A 1 HETATM 37 O OAP COK . . . B 2 62.64 36.494 0.886 1 54.03 ? OAP COK 401 A 1 HETATM 38 C C9P COK . . . B 2 62.095 38.518 2.095 1 54.03 ? C9P COK 401 A 1 HETATM 39 O O9P COK . . . B 2 60.885 38.335 2.21 1 54.03 ? O9P COK 401 A 1 HETATM 40 N N8P COK . . . B 2 62.674 39.714 2.053 1 54.03 ? N8P COK 401 A 1 HETATM 41 C C7P COK . . . B 2 61.981 41.008 2.157 1 54.03 ? C7P COK 401 A 1 HETATM 42 C C6P COK . . . B 2 60.582 40.994 1.535 1 54.03 ? C6P COK 401 A 1 HETATM 43 C C5P COK . . . B 2 60.567 40.529 0.083 1 54.03 ? C5P COK 401 A 1 HETATM 44 O O5P COK . . . B 2 61.609 40.394 -0.568 1 54.03 ? O5P COK 401 A 1 HETATM 45 N N4P COK . . . B 2 59.352 40.288 -0.396 1 54.03 ? N4P COK 401 A 1 HETATM 46 C C3P COK . . . B 2 59.101 39.82 -1.765 1 54.03 ? C3P COK 401 A 1 HETATM 47 C C2P COK . . . B 2 58.196 38.588 -1.697 1 54.03 ? C2P COK 401 A 1 HETATM 48 S S1P COK . . . B 2 57.901 37.826 -3.333 1 54.03 ? S1P COK 401 A 1 HETATM 49 S S49 COK . . . B 2 59.76 37.634 -4.125 1 54.03 ? S49 COK 401 A 1 HETATM 50 C C50 COK . . . B 2 61.087 36.374 -4.075 1 54.03 ? C50 COK 401 A 1 HETATM 51 C C51 COK . . . B 2 61.697 36.218 -2.68 1 54.03 ? C51 COK 401 A 1 HETATM 52 O O52 COK . . . B 2 62.225 37.471 -2.235 1 54.03 ? O52 COK 401 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 329 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 52 #