data_7BPH # _model_server_result.job_id HAlQwrnsY0JEtmaUjVk1vg _model_server_result.datetime_utc '2024-11-13 05:22:45' _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 7bph # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":401}' # _entry.id 7BPH # _exptl.entry_id 7BPH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 522.196 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER' _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 90 _cell.entry_id 7BPH _cell.length_a 68.905 _cell.length_b 78.332 _cell.length_c 80.043 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7BPH _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall 'P 2ac 2ab' _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _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 B C ACE 1 B ACE 0 1_555 B N DTY 2 B DTY 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.36 ? covale ? covale2 B CH3 ACE 1 B ACE 0 1_555 B SG CYS 14 B CYS 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.843 ? covale ? covale3 B C DTY 2 B DTY 1 1_555 B N PHE 3 B PHE 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale4 B C GLY 15 B GLY 14 1_555 B N NH2 16 B NH2 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? metalc ? metalc1 A OG SER 51 A SER 54 1_555 D MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? metalc ? metalc2 A OG1 THR 187 A THR 204 1_555 D MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.161 ? metalc ? metalc3 C O1G GNP . A GNP 401 1_555 D MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? metalc ? metalc4 C O1B GNP . A GNP 401 1_555 D MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? metalc ? metalc5 D MG MG . A MG 402 1_555 G O HOH . A HOH 510 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? metalc ? metalc6 D MG MG . A MG 402 1_555 G O HOH . A HOH 519 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? # _chem_comp.formula 'C10 H17 N6 O13 P3' _chem_comp.formula_weight 522.196 _chem_comp.id GNP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 PG O1G GNP doub 159 n n PG O2G GNP sing 160 n n PG O3G GNP sing 161 n n PG N3B GNP sing 162 n n O2G HOG2 GNP sing 163 n n O3G HOG3 GNP sing 164 n n N3B PB GNP sing 165 n n N3B HNB3 GNP sing 166 n n PB O1B GNP doub 167 n n PB O2B GNP sing 168 n n PB O3A GNP sing 169 n n O2B HOB2 GNP sing 170 n n O3A PA GNP sing 171 n n PA O1A GNP doub 172 n n PA O2A GNP sing 173 n n PA O5' GNP sing 174 n n O2A HOA2 GNP sing 175 n n O5' C5' GNP sing 176 n n C5' C4' GNP sing 177 n n C5' "H5'2" GNP sing 178 n n C5' "H5'1" GNP sing 179 n n C4' O4' GNP sing 180 n n C4' C3' GNP sing 181 n n C4' H4' GNP sing 182 n n O4' C1' GNP sing 183 n n C3' O3' GNP sing 184 n n C3' C2' GNP sing 185 n n C3' H3' GNP sing 186 n n O3' HO3' GNP sing 187 n n C2' O2' GNP sing 188 n n C2' C1' GNP sing 189 n n C2' H2' GNP sing 190 n n O2' HO2' GNP sing 191 n n C1' N9 GNP sing 192 n n C1' H1' GNP sing 193 n n N9 C8 GNP sing 194 n y N9 C4 GNP sing 195 n y C8 N7 GNP doub 196 n y C8 H8 GNP sing 197 n n N7 C5 GNP sing 198 n y C5 C6 GNP sing 199 n y C5 C4 GNP doub 200 n y C6 O6 GNP doub 201 n n C6 N1 GNP sing 202 n y N1 C2 GNP sing 203 n y N1 HN1 GNP sing 204 n n C2 N2 GNP sing 205 n n C2 N3 GNP doub 206 n y N2 HN21 GNP sing 207 n n N2 HN22 GNP sing 208 n n N3 C4 GNP sing 209 n y # _atom_sites.entry_id 7BPH _atom_sites.fract_transf_matrix[1][1] 0.014513 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012766 _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] 0.012493 _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 3 GNP A 1 401 1 GNP GNP . D 4 MG A 1 402 2 MG MG . E 5 GOL A 1 403 3 GOL GOL . F 6 CL A 1 404 4 CL CL . G 7 HOH A 1 501 127 HOH HOH . G 7 HOH A 2 502 77 HOH HOH . G 7 HOH A 3 503 124 HOH HOH . G 7 HOH A 4 504 101 HOH HOH . G 7 HOH A 5 505 70 HOH HOH . G 7 HOH A 6 506 94 HOH HOH . G 7 HOH A 7 507 26 HOH HOH . G 7 HOH A 8 508 76 HOH HOH . G 7 HOH A 9 509 61 HOH HOH . G 7 HOH A 10 510 1 HOH HOH . G 7 HOH A 11 511 17 HOH HOH . G 7 HOH A 12 512 74 HOH HOH . G 7 HOH A 13 513 35 HOH HOH . G 7 HOH A 14 514 36 HOH HOH . G 7 HOH A 15 515 119 HOH HOH . G 7 HOH A 16 516 88 HOH HOH . G 7 HOH A 17 517 128 HOH HOH . G 7 HOH A 18 518 112 HOH HOH . G 7 HOH A 19 519 2 HOH HOH . G 7 HOH A 20 520 79 HOH HOH . G 7 HOH A 21 521 106 HOH HOH . G 7 HOH A 22 522 115 HOH HOH . G 7 HOH A 23 523 108 HOH HOH . G 7 HOH A 24 524 104 HOH HOH . G 7 HOH A 25 525 86 HOH HOH . G 7 HOH A 26 526 75 HOH HOH . G 7 HOH A 27 527 64 HOH HOH . G 7 HOH A 28 528 116 HOH HOH . G 7 HOH A 29 529 52 HOH HOH . G 7 HOH A 30 530 85 HOH HOH . G 7 HOH A 31 531 99 HOH HOH . G 7 HOH A 32 532 62 HOH HOH . G 7 HOH A 33 533 29 HOH HOH . G 7 HOH A 34 534 8 HOH HOH . G 7 HOH A 35 535 67 HOH HOH . G 7 HOH A 36 536 58 HOH HOH . G 7 HOH A 37 537 45 HOH HOH . G 7 HOH A 38 538 95 HOH HOH . G 7 HOH A 39 539 5 HOH HOH . G 7 HOH A 40 540 117 HOH HOH . G 7 HOH A 41 541 9 HOH HOH . G 7 HOH A 42 542 53 HOH HOH . G 7 HOH A 43 543 7 HOH HOH . G 7 HOH A 44 544 109 HOH HOH . G 7 HOH A 45 545 22 HOH HOH . G 7 HOH A 46 546 39 HOH HOH . G 7 HOH A 47 547 55 HOH HOH . G 7 HOH A 48 548 114 HOH HOH . G 7 HOH A 49 549 31 HOH HOH . G 7 HOH A 50 550 32 HOH HOH . G 7 HOH A 51 551 15 HOH HOH . G 7 HOH A 52 552 25 HOH HOH . G 7 HOH A 53 553 121 HOH HOH . G 7 HOH A 54 554 107 HOH HOH . G 7 HOH A 55 555 97 HOH HOH . G 7 HOH A 56 556 98 HOH HOH . G 7 HOH A 57 557 57 HOH HOH . G 7 HOH A 58 558 71 HOH HOH . G 7 HOH A 59 559 24 HOH HOH . G 7 HOH A 60 560 132 HOH HOH . G 7 HOH A 61 561 42 HOH HOH . G 7 HOH A 62 562 11 HOH HOH . G 7 HOH A 63 563 12 HOH HOH . G 7 HOH A 64 564 50 HOH HOH . G 7 HOH A 65 565 68 HOH HOH . G 7 HOH A 66 566 51 HOH HOH . G 7 HOH A 67 567 60 HOH HOH . G 7 HOH A 68 568 37 HOH HOH . G 7 HOH A 69 569 78 HOH HOH . G 7 HOH A 70 570 10 HOH HOH . G 7 HOH A 71 571 34 HOH HOH . G 7 HOH A 72 572 6 HOH HOH . G 7 HOH A 73 573 92 HOH HOH . G 7 HOH A 74 574 3 HOH HOH . G 7 HOH A 75 575 43 HOH HOH . G 7 HOH A 76 576 48 HOH HOH . G 7 HOH A 77 577 23 HOH HOH . G 7 HOH A 78 578 16 HOH HOH . G 7 HOH A 79 579 72 HOH HOH . G 7 HOH A 80 580 19 HOH HOH . G 7 HOH A 81 581 133 HOH HOH . G 7 HOH A 82 582 63 HOH HOH . G 7 HOH A 83 583 80 HOH HOH . G 7 HOH A 84 584 93 HOH HOH . G 7 HOH A 85 585 18 HOH HOH . G 7 HOH A 86 586 49 HOH HOH . G 7 HOH A 87 587 91 HOH HOH . G 7 HOH A 88 588 38 HOH HOH . G 7 HOH A 89 589 4 HOH HOH . G 7 HOH A 90 590 59 HOH HOH . G 7 HOH A 91 591 66 HOH HOH . G 7 HOH A 92 592 82 HOH HOH . G 7 HOH A 93 593 30 HOH HOH . G 7 HOH A 94 594 120 HOH HOH . G 7 HOH A 95 595 100 HOH HOH . G 7 HOH A 96 596 20 HOH HOH . G 7 HOH A 97 597 113 HOH HOH . G 7 HOH A 98 598 131 HOH HOH . G 7 HOH A 99 599 81 HOH HOH . G 7 HOH A 100 600 47 HOH HOH . G 7 HOH A 101 601 40 HOH HOH . G 7 HOH A 102 602 65 HOH HOH . G 7 HOH A 103 603 46 HOH HOH . G 7 HOH A 104 604 69 HOH HOH . G 7 HOH A 105 605 90 HOH HOH . G 7 HOH A 106 606 14 HOH HOH . G 7 HOH A 107 607 96 HOH HOH . G 7 HOH A 108 608 56 HOH HOH . G 7 HOH A 109 609 110 HOH HOH . G 7 HOH A 110 610 44 HOH HOH . G 7 HOH A 111 611 130 HOH HOH . G 7 HOH A 112 612 125 HOH HOH . G 7 HOH A 113 613 33 HOH HOH . G 7 HOH A 114 614 123 HOH HOH . G 7 HOH A 115 615 73 HOH HOH . G 7 HOH A 116 616 54 HOH HOH . G 7 HOH A 117 617 28 HOH HOH . G 7 HOH A 118 618 111 HOH HOH . G 7 HOH A 119 619 118 HOH HOH . G 7 HOH A 120 620 84 HOH HOH . G 7 HOH A 121 621 105 HOH HOH . G 7 HOH A 122 622 41 HOH HOH . G 7 HOH A 123 623 102 HOH HOH . G 7 HOH A 124 624 83 HOH HOH . G 7 HOH A 125 625 122 HOH HOH . G 7 HOH A 126 626 89 HOH HOH . G 7 HOH A 127 627 126 HOH HOH . H 7 HOH B 1 101 13 HOH HOH . H 7 HOH B 2 102 27 HOH HOH . H 7 HOH B 3 103 21 HOH HOH . H 7 HOH B 4 104 87 HOH HOH . H 7 HOH B 5 105 103 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 P PG GNP . . . C 3 -22.517 -10.203 2.678 1 12.9 ? PG GNP 401 A 1 HETATM 2 O O1G GNP . . . C 3 -23.83 -10.849 2.859 1 9.87 ? O1G GNP 401 A 1 HETATM 3 O O2G GNP . . . C 3 -22.628 -9.193 1.6 1 14.55 ? O2G GNP 401 A 1 HETATM 4 O O3G GNP . . . C 3 -21.419 -11.17 2.297 1 14.61 ? O3G GNP 401 A 1 HETATM 5 N N3B GNP . . . C 3 -21.984 -9.478 4.166 1 5.53 ? N3B GNP 401 A 1 HETATM 6 P PB GNP . . . C 3 -23.012 -8.418 4.935 1 5.75 ? PB GNP 401 A 1 HETATM 7 O O1B GNP . . . C 3 -24.355 -9.029 5.162 1 3.9 ? O1B GNP 401 A 1 HETATM 8 O O2B GNP . . . C 3 -23.05 -7.061 4.36 1 6.68 ? O2B GNP 401 A 1 HETATM 9 O O3A GNP . . . C 3 -22.274 -8.277 6.361 1 4.67 ? O3A GNP 401 A 1 HETATM 10 P PA GNP . . . C 3 -22.738 -8.933 7.783 1 6.28 ? PA GNP 401 A 1 HETATM 11 O O1A GNP . . . C 3 -22.74 -10.391 7.647 1 7.63 -1 O1A GNP 401 A 1 HETATM 12 O O2A GNP . . . C 3 -23.978 -8.316 8.203 1 8.29 ? O2A GNP 401 A 1 HETATM 13 O O5' GNP . . . C 3 -21.533 -8.47 8.749 1 5.37 ? O5' GNP 401 A 1 HETATM 14 C C5' GNP . . . C 3 -20.225 -8.926 8.549 1 7.08 ? C5' GNP 401 A 1 HETATM 15 C C4' GNP . . . C 3 -19.553 -9.007 9.886 1 7.05 ? C4' GNP 401 A 1 HETATM 16 O O4' GNP . . . C 3 -19.376 -7.639 10.413 1 6.88 ? O4' GNP 401 A 1 HETATM 17 C C3' GNP . . . C 3 -20.381 -9.736 10.925 1 7.29 ? C3' GNP 401 A 1 HETATM 18 O O3' GNP . . . C 3 -19.459 -10.476 11.777 1 9.98 ? O3' GNP 401 A 1 HETATM 19 C C2' GNP . . . C 3 -21.039 -8.616 11.658 1 6.15 ? C2' GNP 401 A 1 HETATM 20 O O2' GNP . . . C 3 -21.302 -8.897 13.024 1 7.79 ? O2' GNP 401 A 1 HETATM 21 C C1' GNP . . . C 3 -19.997 -7.542 11.721 1 5.23 ? C1' GNP 401 A 1 HETATM 22 N N9 GNP . . . C 3 -20.546 -6.219 11.8 1 5.9 ? N9 GNP 401 A 1 HETATM 23 C C8 GNP . . . C 3 -21.444 -5.744 10.957 1 6.96 ? C8 GNP 401 A 1 HETATM 24 N N7 GNP . . . C 3 -21.709 -4.428 11.224 1 7.87 ? N7 GNP 401 A 1 HETATM 25 C C5 GNP . . . C 3 -20.864 -4.138 12.366 1 4.87 ? C5 GNP 401 A 1 HETATM 26 C C6 GNP . . . C 3 -20.587 -2.979 13.122 1 6.81 ? C6 GNP 401 A 1 HETATM 27 O O6 GNP . . . C 3 -21.178 -1.824 12.977 1 5.75 ? O6 GNP 401 A 1 HETATM 28 N N1 GNP . . . C 3 -19.674 -3.05 14.111 1 7.47 ? N1 GNP 401 A 1 HETATM 29 C C2 GNP . . . C 3 -18.988 -4.288 14.315 1 6.54 ? C2 GNP 401 A 1 HETATM 30 N N2 GNP . . . C 3 -18.067 -4.34 15.38 1 6.61 ? N2 GNP 401 A 1 HETATM 31 N N3 GNP . . . C 3 -19.181 -5.5 13.628 1 5.62 ? N3 GNP 401 A 1 HETATM 32 C C4 GNP . . . C 3 -20.097 -5.29 12.64 1 4.85 ? C4 GNP 401 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 32 #