data_3I64 # _model_server_result.job_id TwGROn-TULjD52rx0OK04Q _model_server_result.datetime_utc '2024-11-14 16:26:07' _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 3i64 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":402}' # _entry.id 3I64 # _exptl.entry_id 3I64 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 204.179 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '1,4-dihydroxy-2-naphthoic acid' _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 3I64 _cell.length_a 108.031 _cell.length_b 108.031 _cell.length_c 211.854 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3I64 _symmetry.cell_setting ? _symmetry.Int_Tables_number 170 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65' # _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,I,J _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 ? 3 D N N ? 3 G N N # _chem_comp.formula 'C11 H8 O4' _chem_comp.formula_weight 204.179 _chem_comp.id DNA _chem_comp.mon_nstd_flag . _chem_comp.name '1,4-dihydroxy-2-naphthoic acid' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '1,4-dihydroxynaphthalene-2-carboxylic acid' # 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 O1A C1J DNA doub 83 n n C1J O1B DNA sing 84 n n O1B HO1B DNA sing 85 n n C1K O1C DNA sing 86 n n O1C HO1C DNA sing 87 n n O1D C1M DNA sing 88 n n O1D HO1D DNA sing 89 n n C1F C1E DNA doub 90 n y C1E C1G DNA sing 91 n y C1E H1E DNA sing 92 n n C1F C1H DNA sing 93 n y C1F H1F DNA sing 94 n n C1G C1N DNA doub 95 n y C1G H1G DNA sing 96 n n C1H C1O DNA doub 97 n y C1H H1H DNA sing 98 n n C1L C1I DNA sing 99 n y C1K C1I DNA doub 100 n y C1I H1I DNA sing 101 n n C1L C1J DNA sing 102 n n C1N C1K DNA sing 103 n y C1M C1L DNA doub 104 n y C1O C1M DNA sing 105 n y C1O C1N DNA sing 106 n y # _atom_sites.entry_id 3I64 _atom_sites.fract_transf_matrix[1][1] 0.009257 _atom_sites.fract_transf_matrix[1][2] 0.005344 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010689 _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] 0.00472 _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 SAH A 1 401 1 SAH SAH . D 3 DNA A 1 402 3 DNA DHN . E 4 GOL A 1 403 5 GOL GOL . F 2 SAH B 1 401 2 SAH SAH . G 3 DNA B 1 402 4 DNA DHN . H 4 GOL B 1 404 6 GOL GOL . I 5 HOH A 1 501 1 HOH HOH . I 5 HOH A 2 503 3 HOH HOH . I 5 HOH A 3 505 5 HOH HOH . I 5 HOH A 4 507 7 HOH HOH . I 5 HOH A 5 508 8 HOH HOH . I 5 HOH A 6 510 10 HOH HOH . I 5 HOH A 7 511 11 HOH HOH . I 5 HOH A 8 512 12 HOH HOH . I 5 HOH A 9 516 16 HOH HOH . I 5 HOH A 10 520 20 HOH HOH . I 5 HOH A 11 524 24 HOH HOH . I 5 HOH A 12 528 28 HOH HOH . I 5 HOH A 13 529 29 HOH HOH . I 5 HOH A 14 531 31 HOH HOH . I 5 HOH A 15 538 38 HOH HOH . I 5 HOH A 16 541 41 HOH HOH . I 5 HOH A 17 542 42 HOH HOH . I 5 HOH A 18 543 43 HOH HOH . I 5 HOH A 19 544 44 HOH HOH . I 5 HOH A 20 546 46 HOH HOH . I 5 HOH A 21 548 48 HOH HOH . I 5 HOH A 22 549 49 HOH HOH . I 5 HOH A 23 550 50 HOH HOH . I 5 HOH A 24 551 51 HOH HOH . I 5 HOH A 25 552 52 HOH HOH . I 5 HOH A 26 557 57 HOH HOH . I 5 HOH A 27 558 58 HOH HOH . I 5 HOH A 28 559 59 HOH HOH . I 5 HOH A 29 561 61 HOH HOH . I 5 HOH A 30 562 62 HOH HOH . I 5 HOH A 31 563 63 HOH HOH . I 5 HOH A 32 568 68 HOH HOH . I 5 HOH A 33 569 69 HOH HOH . I 5 HOH A 34 572 72 HOH HOH . I 5 HOH A 35 574 74 HOH HOH . I 5 HOH A 36 576 76 HOH HOH . I 5 HOH A 37 580 80 HOH HOH . I 5 HOH A 38 583 83 HOH HOH . I 5 HOH A 39 585 85 HOH HOH . I 5 HOH A 40 586 86 HOH HOH . I 5 HOH A 41 587 87 HOH HOH . I 5 HOH A 42 588 88 HOH HOH . I 5 HOH A 43 590 90 HOH HOH . I 5 HOH A 44 592 92 HOH HOH . I 5 HOH A 45 594 94 HOH HOH . I 5 HOH A 46 595 95 HOH HOH . J 5 HOH B 1 502 2 HOH HOH . J 5 HOH B 2 504 4 HOH HOH . J 5 HOH B 3 506 6 HOH HOH . J 5 HOH B 4 509 9 HOH HOH . J 5 HOH B 5 513 13 HOH HOH . J 5 HOH B 6 514 14 HOH HOH . J 5 HOH B 7 515 15 HOH HOH . J 5 HOH B 8 517 17 HOH HOH . J 5 HOH B 9 518 18 HOH HOH . J 5 HOH B 10 519 19 HOH HOH . J 5 HOH B 11 521 21 HOH HOH . J 5 HOH B 12 522 22 HOH HOH . J 5 HOH B 13 523 23 HOH HOH . J 5 HOH B 14 525 25 HOH HOH . J 5 HOH B 15 526 26 HOH HOH . J 5 HOH B 16 527 27 HOH HOH . J 5 HOH B 17 530 30 HOH HOH . J 5 HOH B 18 532 32 HOH HOH . J 5 HOH B 19 533 33 HOH HOH . J 5 HOH B 20 534 34 HOH HOH . J 5 HOH B 21 535 35 HOH HOH . J 5 HOH B 22 536 36 HOH HOH . J 5 HOH B 23 537 37 HOH HOH . J 5 HOH B 24 539 39 HOH HOH . J 5 HOH B 25 540 40 HOH HOH . J 5 HOH B 26 545 45 HOH HOH . J 5 HOH B 27 547 47 HOH HOH . J 5 HOH B 28 553 53 HOH HOH . J 5 HOH B 29 554 54 HOH HOH . J 5 HOH B 30 555 55 HOH HOH . J 5 HOH B 31 556 56 HOH HOH . J 5 HOH B 32 560 60 HOH HOH . J 5 HOH B 33 564 64 HOH HOH . J 5 HOH B 34 565 65 HOH HOH . J 5 HOH B 35 566 66 HOH HOH . J 5 HOH B 36 567 67 HOH HOH . J 5 HOH B 37 570 70 HOH HOH . J 5 HOH B 38 571 71 HOH HOH . J 5 HOH B 39 573 73 HOH HOH . J 5 HOH B 40 575 75 HOH HOH . J 5 HOH B 41 577 77 HOH HOH . J 5 HOH B 42 578 78 HOH HOH . J 5 HOH B 43 579 79 HOH HOH . J 5 HOH B 44 581 81 HOH HOH . J 5 HOH B 45 582 82 HOH HOH . J 5 HOH B 46 584 84 HOH HOH . J 5 HOH B 47 589 89 HOH HOH . J 5 HOH B 48 591 91 HOH HOH . J 5 HOH B 49 593 93 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 O O1A DNA . . . D 3 -43.294 34.594 -7.49 1 65.78 ? O1A DNA 402 A 1 HETATM 2 O O1B DNA . . . D 3 -42.778 34.688 -5.34 1 64.74 ? O1B DNA 402 A 1 HETATM 3 O O1C DNA . . . D 3 -39.054 31.432 -4.668 1 52.93 ? O1C DNA 402 A 1 HETATM 4 O O1D DNA . . . D 3 -41.935 33.115 -9.058 1 55.01 ? O1D DNA 402 A 1 HETATM 5 C C1E DNA . . . D 3 -38.158 29.954 -8.474 1 56.69 ? C1E DNA 402 A 1 HETATM 6 C C1F DNA . . . D 3 -38.887 30.388 -9.576 1 53.5 ? C1F DNA 402 A 1 HETATM 7 C C1G DNA . . . D 3 -38.451 30.427 -7.198 1 55.32 ? C1G DNA 402 A 1 HETATM 8 C C1H DNA . . . D 3 -39.919 31.302 -9.4 1 52.85 ? C1H DNA 402 A 1 HETATM 9 C C1I DNA . . . D 3 -40.794 32.765 -5.594 1 56.2 ? C1I DNA 402 A 1 HETATM 10 C C1J DNA . . . D 3 -42.624 34.238 -6.496 1 62.86 ? C1J DNA 402 A 1 HETATM 11 C C1K DNA . . . D 3 -39.769 31.838 -5.753 1 56.76 ? C1K DNA 402 A 1 HETATM 12 C C1L DNA . . . D 3 -41.523 33.196 -6.697 1 58.56 ? C1L DNA 402 A 1 HETATM 13 C C1M DNA . . . D 3 -41.236 32.702 -7.966 1 56.82 ? C1M DNA 402 A 1 HETATM 14 C C1N DNA . . . D 3 -39.481 31.344 -7.022 1 56.05 ? C1N DNA 402 A 1 HETATM 15 C C1O DNA . . . D 3 -40.212 31.776 -8.126 1 55.39 ? C1O DNA 402 A 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 36 _model_server_stats.query_time_ms 350 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 15 #