data_7DYV
#
_model_server_result.job_id            IZ6ec6uhnIpPD7CstutjGA 
_model_server_result.datetime_utc      '2025-02-26 21:30:17' 
_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          7dyv 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":502}' 
#
_entry.id    7DYV 
#
_exptl.entry_id    7DYV 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              272.256 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '5-(benzylamino)pyridine-2,4-dicarboxylic acid' 
_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            7DYV 
_cell.length_a            49.338 
_cell.length_b            65.339 
_cell.length_c            78.61 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7DYV 
_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        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
_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
metalc ? metalc1 A NE2 HIS 140 A HIS 321 1_555 B MN MN . A MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.353 ? 
metalc ? metalc2 A OD2 ASP 142 A ASP 323 1_555 B MN MN . A MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.193 ? 
metalc ? metalc3 A NE2 HIS 219 A HIS 400 1_555 B MN MN . A MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.363 ? 
metalc ? metalc4 B MN MN . A MN 501 1_555 C O2 HRF . A HRF 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.161 ? 
metalc ? metalc5 B MN MN . A MN 501 1_555 C N1 HRF . A HRF 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.412 ? 
metalc ? metalc6 B MN MN . A MN 501 1_555 D O HOH . A HOH 637 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? 
#
_chem_comp.formula           'C14 H12 N2 O4' 
_chem_comp.formula_weight    272.256 
_chem_comp.id                HRF 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '5-(benzylamino)pyridine-2,4-dicarboxylic acid' 
_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
C8 C9 HRF doub 152 n y 
C8 C7 HRF sing 153 n y 
C6 C7 HRF sing 154 n n 
C6 N2 HRF sing 155 n n 
C9 C10 HRF sing 156 n y 
C7 C12 HRF doub 157 n y 
C10 C11 HRF doub 158 n y 
C2 N1 HRF doub 159 n y 
C2 C1 HRF sing 160 n y 
C12 C11 HRF sing 161 n y 
N1 C3 HRF sing 162 n y 
O2 C13 HRF doub 163 n n 
N2 C1 HRF sing 164 n n 
C1 C5 HRF doub 165 n y 
C3 C13 HRF sing 166 n n 
C3 C4 HRF doub 167 n y 
C13 O1 HRF sing 168 n n 
C5 C4 HRF sing 169 n y 
C5 C14 HRF sing 170 n n 
O3 C14 HRF doub 171 n n 
C14 O4 HRF sing 172 n n 
C10 H08 HRF sing 173 n n 
C2 H01 HRF sing 174 n n 
C4 H02 HRF sing 175 n n 
C6 H04 HRF sing 176 n n 
C6 H05 HRF sing 177 n n 
C8 H06 HRF sing 178 n n 
C9 H07 HRF sing 179 n n 
C11 H09 HRF sing 180 n n 
C12 H10 HRF sing 181 n n 
N2 H03 HRF sing 182 n n 
O1 H1 HRF sing 183 n n 
O4 H2 HRF sing 184 n n 
#
_atom_sites.entry_id                     7DYV 
_atom_sites.fract_transf_matrix[1][1]    0.020268 
_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]    0.015305 
_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]    0.012721 
_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 MN A 1 501 501 MN MN . 
C 3 HRF A 1 502 2 HRF LIG . 
D 4 HOH A 1 601 42 HOH HOH . 
D 4 HOH A 2 602 71 HOH HOH . 
D 4 HOH A 3 603 48 HOH HOH . 
D 4 HOH A 4 604 76 HOH HOH . 
D 4 HOH A 5 605 93 HOH HOH . 
D 4 HOH A 6 606 54 HOH HOH . 
D 4 HOH A 7 607 75 HOH HOH . 
D 4 HOH A 8 608 9 HOH HOH . 
D 4 HOH A 9 609 72 HOH HOH . 
D 4 HOH A 10 610 11 HOH HOH . 
D 4 HOH A 11 611 94 HOH HOH . 
D 4 HOH A 12 612 39 HOH HOH . 
D 4 HOH A 13 613 104 HOH HOH . 
D 4 HOH A 14 614 87 HOH HOH . 
D 4 HOH A 15 615 23 HOH HOH . 
D 4 HOH A 16 616 31 HOH HOH . 
D 4 HOH A 17 617 34 HOH HOH . 
D 4 HOH A 18 618 8 HOH HOH . 
D 4 HOH A 19 619 33 HOH HOH . 
D 4 HOH A 20 620 2 HOH HOH . 
D 4 HOH A 21 621 3 HOH HOH . 
D 4 HOH A 22 622 61 HOH HOH . 
D 4 HOH A 23 623 6 HOH HOH . 
D 4 HOH A 24 624 26 HOH HOH . 
D 4 HOH A 25 625 91 HOH HOH . 
D 4 HOH A 26 626 32 HOH HOH . 
D 4 HOH A 27 627 30 HOH HOH . 
D 4 HOH A 28 628 41 HOH HOH . 
D 4 HOH A 29 629 24 HOH HOH . 
D 4 HOH A 30 630 120 HOH HOH . 
D 4 HOH A 31 631 45 HOH HOH . 
D 4 HOH A 32 632 128 HOH HOH . 
D 4 HOH A 33 633 17 HOH HOH . 
D 4 HOH A 34 634 25 HOH HOH . 
D 4 HOH A 35 635 27 HOH HOH . 
D 4 HOH A 36 636 19 HOH HOH . 
D 4 HOH A 37 637 4 HOH HOH . 
D 4 HOH A 38 638 12 HOH HOH . 
D 4 HOH A 39 639 68 HOH HOH . 
D 4 HOH A 40 640 10 HOH HOH . 
D 4 HOH A 41 641 129 HOH HOH . 
D 4 HOH A 42 642 1 HOH HOH . 
D 4 HOH A 43 643 77 HOH HOH . 
D 4 HOH A 44 644 114 HOH HOH . 
D 4 HOH A 45 645 46 HOH HOH . 
D 4 HOH A 46 646 14 HOH HOH . 
D 4 HOH A 47 647 43 HOH HOH . 
D 4 HOH A 48 648 21 HOH HOH . 
D 4 HOH A 49 649 20 HOH HOH . 
D 4 HOH A 50 650 119 HOH HOH . 
D 4 HOH A 51 651 47 HOH HOH . 
D 4 HOH A 52 652 66 HOH HOH . 
D 4 HOH A 53 653 56 HOH HOH . 
D 4 HOH A 54 654 53 HOH HOH . 
D 4 HOH A 55 655 18 HOH HOH . 
D 4 HOH A 56 656 92 HOH HOH . 
D 4 HOH A 57 657 28 HOH HOH . 
D 4 HOH A 58 658 29 HOH HOH . 
D 4 HOH A 59 659 81 HOH HOH . 
D 4 HOH A 60 660 44 HOH HOH . 
D 4 HOH A 61 661 13 HOH HOH . 
D 4 HOH A 62 662 89 HOH HOH . 
D 4 HOH A 63 663 35 HOH HOH . 
D 4 HOH A 64 664 107 HOH HOH . 
D 4 HOH A 65 665 51 HOH HOH . 
D 4 HOH A 66 666 5 HOH HOH . 
D 4 HOH A 67 667 15 HOH HOH . 
D 4 HOH A 68 668 38 HOH HOH . 
D 4 HOH A 69 669 99 HOH HOH . 
D 4 HOH A 70 670 82 HOH HOH . 
D 4 HOH A 71 671 108 HOH HOH . 
D 4 HOH A 72 672 74 HOH HOH . 
D 4 HOH A 73 673 55 HOH HOH . 
D 4 HOH A 74 674 118 HOH HOH . 
D 4 HOH A 75 675 62 HOH HOH . 
D 4 HOH A 76 676 117 HOH HOH . 
D 4 HOH A 77 677 22 HOH HOH . 
D 4 HOH A 78 678 97 HOH HOH . 
D 4 HOH A 79 679 80 HOH HOH . 
D 4 HOH A 80 680 86 HOH HOH . 
D 4 HOH A 81 681 16 HOH HOH . 
D 4 HOH A 82 682 37 HOH HOH . 
D 4 HOH A 83 683 98 HOH HOH . 
D 4 HOH A 84 684 59 HOH HOH . 
D 4 HOH A 85 685 7 HOH HOH . 
D 4 HOH A 86 686 101 HOH HOH . 
D 4 HOH A 87 687 90 HOH HOH . 
D 4 HOH A 88 688 95 HOH HOH . 
D 4 HOH A 89 689 88 HOH HOH . 
D 4 HOH A 90 690 83 HOH HOH . 
D 4 HOH A 91 691 52 HOH HOH . 
D 4 HOH A 92 692 127 HOH HOH . 
D 4 HOH A 93 693 65 HOH HOH . 
D 4 HOH A 94 694 105 HOH HOH . 
D 4 HOH A 95 695 36 HOH HOH . 
D 4 HOH A 96 696 79 HOH HOH . 
D 4 HOH A 97 697 58 HOH HOH . 
D 4 HOH A 98 698 50 HOH HOH . 
D 4 HOH A 99 699 69 HOH HOH . 
D 4 HOH A 100 700 96 HOH HOH . 
D 4 HOH A 101 701 103 HOH HOH . 
D 4 HOH A 102 702 111 HOH HOH . 
D 4 HOH A 103 703 125 HOH HOH . 
D 4 HOH A 104 704 85 HOH HOH . 
D 4 HOH A 105 705 113 HOH HOH . 
D 4 HOH A 106 706 109 HOH HOH . 
D 4 HOH A 107 707 73 HOH HOH . 
D 4 HOH A 108 708 102 HOH HOH . 
D 4 HOH A 109 709 64 HOH HOH . 
D 4 HOH A 110 710 116 HOH HOH . 
D 4 HOH A 111 711 112 HOH HOH . 
D 4 HOH A 112 712 84 HOH HOH . 
D 4 HOH A 113 713 40 HOH HOH . 
D 4 HOH A 114 714 63 HOH HOH . 
D 4 HOH A 115 715 67 HOH HOH . 
D 4 HOH A 116 716 122 HOH HOH . 
D 4 HOH A 117 717 57 HOH HOH . 
D 4 HOH A 118 718 49 HOH HOH . 
D 4 HOH A 119 719 70 HOH HOH . 
D 4 HOH A 120 720 121 HOH HOH . 
D 4 HOH A 121 721 60 HOH HOH . 
D 4 HOH A 122 722 126 HOH HOH . 
D 4 HOH A 123 723 100 HOH HOH . 
D 4 HOH A 124 724 123 HOH HOH . 
D 4 HOH A 125 725 78 HOH HOH . 
D 4 HOH A 126 726 110 HOH HOH . 
D 4 HOH A 127 727 106 HOH HOH . 
D 4 HOH A 128 728 115 HOH HOH . 
D 4 HOH A 129 729 124 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 C C10 HRF . . . C 3 -0.524 10.039 -24.443 1 83.61 ? C10 HRF 502 A 1 
HETATM 2 C C13 HRF . . . C 3 -10.727 11.746 -23.038 1 38.16 ? C13 HRF 502 A 1 
HETATM 3 C C1 HRF . . . C 3 -6.569 11.914 -23.633 1 71.2 ? C1 HRF 502 A 1 
HETATM 4 C C2 HRF . . . C 3 -7.517 11.365 -24.409 1 62.53 ? C2 HRF 502 A 1 
HETATM 5 C C3 HRF . . . C 3 -9.345 11.83 -23.196 1 38.74 ? C3 HRF 502 A 1 
HETATM 6 C C4 HRF . . . C 3 -8.52 12.442 -22.267 1 42.62 ? C4 HRF 502 A 1 
HETATM 7 C C5 HRF . . . C 3 -7.181 12.439 -22.55 1 56.09 ? C5 HRF 502 A 1 
HETATM 8 C C6 HRF . . . C 3 -4.757 10.716 -24.827 1 69.99 ? C6 HRF 502 A 1 
HETATM 9 C C7 HRF . . . C 3 -3.256 10.457 -24.686 1 75.25 ? C7 HRF 502 A 1 
HETATM 10 C C8 HRF . . . C 3 -2.69 9.239 -24.915 1 82.95 ? C8 HRF 502 A 1 
HETATM 11 C C9 HRF . . . C 3 -1.348 9.023 -24.794 1 86.98 ? C9 HRF 502 A 1 
HETATM 12 C C11 HRF . . . C 3 -1.045 11.263 -24.214 1 80.11 ? C11 HRF 502 A 1 
HETATM 13 C C12 HRF . . . C 3 -2.384 11.414 -24.349 1 77.01 ? C12 HRF 502 A 1 
HETATM 14 C C14 HRF . . . C 3 -6.423 13.054 -21.596 1 41.68 ? C14 HRF 502 A 1 
HETATM 15 N N1 HRF . . . C 3 -8.773 11.289 -24.283 1 49.58 ? N1 HRF 502 A 1 
HETATM 16 N N2 HRF . . . C 3 -5.358 11.814 -24.03 1 71.84 ? N2 HRF 502 A 1 
HETATM 17 O O1 HRF . . . C 3 -11.238 12.032 -21.976 1 28.16 ? O1 HRF 502 A 1 
HETATM 18 O O2 HRF . . . C 3 -11.451 11.327 -24.036 1 29.93 -1 O2 HRF 502 A 1 
HETATM 19 O O3 HRF . . . C 3 -5.216 13.197 -21.716 1 32.07 ? O3 HRF 502 A 1 
HETATM 20 O O4 HRF . . . C 3 -6.93 13.56 -20.419 1 31.19 -1 O4 HRF 502 A 1 
HETATM 21 H H08 HRF . . . C 3 0.367 9.775 -24.393 1 100.36 ? H08 HRF 502 A 1 
HETATM 22 H H01 HRF . . . C 3 -7.211 10.96 -25.188 1 75.06 ? H01 HRF 502 A 1 
HETATM 23 H H02 HRF . . . C 3 -8.883 12.825 -21.502 1 51.17 ? H02 HRF 502 A 1 
HETATM 24 H H04 HRF . . . C 3 -5.038 9.819 -24.59 1 84.01 ? H04 HRF 502 A 1 
HETATM 25 H H05 HRF . . . C 3 -4.748 10.847 -25.788 1 84.01 ? H05 HRF 502 A 1 
HETATM 26 H H06 HRF . . . C 3 -3.263 8.549 -25.161 1 99.57 ? H06 HRF 502 A 1 
HETATM 27 H H07 HRF . . . C 3 -1.036 8.163 -24.961 1 104.4 ? H07 HRF 502 A 1 
HETATM 28 H H09 HRF . . . C 3 -0.579 12.03 -23.968 1 96.16 ? H09 HRF 502 A 1 
HETATM 29 H H10 HRF . . . C 3 -2.691 12.276 -24.184 1 92.44 ? H10 HRF 502 A 1 
HETATM 30 H H03 HRF . . . C 3 -4.856 12.471 -23.794 1 86.24 ? H03 HRF 502 A 1 
#
_model_server_stats.io_time_ms              28 
_model_server_stats.parse_time_ms           64 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           600 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           30 
#