data_6FDQ
#
_model_server_result.job_id            RVJEkmzoprPGD4ofnaXwDw 
_model_server_result.datetime_utc      '2024-11-23 23:26:50' 
_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          6fdq 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":501}' 
#
_entry.id    6FDQ 
#
_exptl.entry_id    6FDQ 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              240.261 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            N-benzyl-2-[(Z)-iminomethyl]pyrimidine-5-carboxamide 
_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          94.73 
_cell.angle_gamma         90 
_cell.entry_id            6FDQ 
_cell.length_a            43.59 
_cell.length_b            57.037 
_cell.length_c            114.593 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6FDQ 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,E 1 1 
B,D,F 2 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 D 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 SG CYS 210 A CYS 345 1_555 C C12 2UQ . A 2UQ 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.715 ? 
covale ? covale2 B SG CYS 210 B CYS 345 1_555 D C12 2UQ . B 2UQ 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.714 ? 
#
_chem_comp.formula           'C13 H12 N4 O' 
_chem_comp.formula_weight    240.261 
_chem_comp.id                2UQ 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              N-benzyl-2-[(Z)-iminomethyl]pyrimidine-5-carboxamide 
_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
N5 C6 2UQ doub 1 n y 
N5 C4 2UQ sing 2 n y 
C6 C1 2UQ sing 3 n y 
C18 C17 2UQ doub 4 n y 
C18 C11 2UQ sing 5 n y 
C17 C16 2UQ sing 6 n y 
N9 C10 2UQ sing 7 n n 
N9 C7 2UQ sing 8 n n 
C10 C11 2UQ sing 9 n n 
C11 C14 2UQ doub 10 n y 
C12 C4 2UQ sing 11 n n 
C12 N13 2UQ doub 12 n n 
C16 C15 2UQ doub 13 n y 
C4 N3 2UQ doub 14 n y 
C1 C7 2UQ sing 15 n n 
C1 C2 2UQ doub 16 n y 
C14 C15 2UQ sing 17 n y 
C7 O8 2UQ doub 18 n n 
N3 C2 2UQ sing 19 n y 
C2 H1 2UQ sing 20 n n 
C12 H2 2UQ sing 21 n n 
C14 H3 2UQ sing 22 n n 
C15 H4 2UQ sing 23 n n 
C16 H5 2UQ sing 24 n n 
C17 H6 2UQ sing 25 n n 
C18 H7 2UQ sing 26 n n 
C6 H8 2UQ sing 27 n n 
N9 H9 2UQ sing 28 n n 
C10 H10 2UQ sing 29 n n 
C10 H11 2UQ sing 30 n n 
N13 H12 2UQ sing 31 n n 
#
_atom_sites.entry_id                     6FDQ 
_atom_sites.fract_transf_matrix[1][1]    0.022941 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001898 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.017532 
_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]    0.008756 
_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 2UQ A 1 501 2 2UQ DRG . 
D 2 2UQ B 1 501 3 2UQ DRG . 
E 3 HOH A 1 601 24 HOH HOH . 
E 3 HOH A 2 602 87 HOH HOH . 
E 3 HOH A 3 603 104 HOH HOH . 
E 3 HOH A 4 604 153 HOH HOH . 
E 3 HOH A 5 605 9 HOH HOH . 
E 3 HOH A 6 606 25 HOH HOH . 
E 3 HOH A 7 607 86 HOH HOH . 
E 3 HOH A 8 608 54 HOH HOH . 
E 3 HOH A 9 609 21 HOH HOH . 
E 3 HOH A 10 610 50 HOH HOH . 
E 3 HOH A 11 611 38 HOH HOH . 
E 3 HOH A 12 612 103 HOH HOH . 
E 3 HOH A 13 613 46 HOH HOH . 
E 3 HOH A 14 614 42 HOH HOH . 
E 3 HOH A 15 615 10 HOH HOH . 
E 3 HOH A 16 616 128 HOH HOH . 
E 3 HOH A 17 617 134 HOH HOH . 
E 3 HOH A 18 618 90 HOH HOH . 
E 3 HOH A 19 619 122 HOH HOH . 
E 3 HOH A 20 620 89 HOH HOH . 
E 3 HOH A 21 621 109 HOH HOH . 
E 3 HOH A 22 622 83 HOH HOH . 
E 3 HOH A 23 623 27 HOH HOH . 
E 3 HOH A 24 624 165 HOH HOH . 
E 3 HOH A 25 625 4 HOH HOH . 
E 3 HOH A 26 626 48 HOH HOH . 
E 3 HOH A 27 627 11 HOH HOH . 
E 3 HOH A 28 628 131 HOH HOH . 
E 3 HOH A 29 629 97 HOH HOH . 
E 3 HOH A 30 630 84 HOH HOH . 
E 3 HOH A 31 631 1 HOH HOH . 
E 3 HOH A 32 632 63 HOH HOH . 
E 3 HOH A 33 633 65 HOH HOH . 
E 3 HOH A 34 634 2 HOH HOH . 
E 3 HOH A 35 635 82 HOH HOH . 
E 3 HOH A 36 636 17 HOH HOH . 
E 3 HOH A 37 637 145 HOH HOH . 
E 3 HOH A 38 638 31 HOH HOH . 
E 3 HOH A 39 639 135 HOH HOH . 
E 3 HOH A 40 640 6 HOH HOH . 
E 3 HOH A 41 641 8 HOH HOH . 
E 3 HOH A 42 642 102 HOH HOH . 
E 3 HOH A 43 643 148 HOH HOH . 
E 3 HOH A 44 644 51 HOH HOH . 
E 3 HOH A 45 645 52 HOH HOH . 
E 3 HOH A 46 646 96 HOH HOH . 
E 3 HOH A 47 647 98 HOH HOH . 
E 3 HOH A 48 648 43 HOH HOH . 
E 3 HOH A 49 649 129 HOH HOH . 
E 3 HOH A 50 650 59 HOH HOH . 
E 3 HOH A 51 651 12 HOH HOH . 
E 3 HOH A 52 652 34 HOH HOH . 
E 3 HOH A 53 653 159 HOH HOH . 
E 3 HOH A 54 654 53 HOH HOH . 
E 3 HOH A 55 655 41 HOH HOH . 
E 3 HOH A 56 656 55 HOH HOH . 
E 3 HOH A 57 657 149 HOH HOH . 
E 3 HOH A 58 658 92 HOH HOH . 
E 3 HOH A 59 659 133 HOH HOH . 
E 3 HOH A 60 660 110 HOH HOH . 
E 3 HOH A 61 661 127 HOH HOH . 
E 3 HOH A 62 662 132 HOH HOH . 
E 3 HOH A 63 663 67 HOH HOH . 
E 3 HOH A 64 664 158 HOH HOH . 
E 3 HOH A 65 665 142 HOH HOH . 
E 3 HOH A 66 666 81 HOH HOH . 
E 3 HOH A 67 667 44 HOH HOH . 
E 3 HOH A 68 668 150 HOH HOH . 
E 3 HOH A 69 669 151 HOH HOH . 
E 3 HOH A 70 670 30 HOH HOH . 
E 3 HOH A 71 671 79 HOH HOH . 
E 3 HOH A 72 672 139 HOH HOH . 
E 3 HOH A 73 673 58 HOH HOH . 
E 3 HOH A 74 674 163 HOH HOH . 
E 3 HOH A 75 675 147 HOH HOH . 
E 3 HOH A 76 676 108 HOH HOH . 
E 3 HOH A 77 677 152 HOH HOH . 
E 3 HOH A 78 678 125 HOH HOH . 
E 3 HOH A 79 679 76 HOH HOH . 
E 3 HOH A 80 680 78 HOH HOH . 
E 3 HOH A 81 681 161 HOH HOH . 
E 3 HOH A 82 682 146 HOH HOH . 
E 3 HOH A 83 683 80 HOH HOH . 
E 3 HOH A 84 684 162 HOH HOH . 
E 3 HOH A 85 685 144 HOH HOH . 
E 3 HOH A 86 686 164 HOH HOH . 
F 3 HOH B 1 601 94 HOH HOH . 
F 3 HOH B 2 602 32 HOH HOH . 
F 3 HOH B 3 603 36 HOH HOH . 
F 3 HOH B 4 604 15 HOH HOH . 
F 3 HOH B 5 605 85 HOH HOH . 
F 3 HOH B 6 606 16 HOH HOH . 
F 3 HOH B 7 607 56 HOH HOH . 
F 3 HOH B 8 608 62 HOH HOH . 
F 3 HOH B 9 609 49 HOH HOH . 
F 3 HOH B 10 610 99 HOH HOH . 
F 3 HOH B 11 611 37 HOH HOH . 
F 3 HOH B 12 612 77 HOH HOH . 
F 3 HOH B 13 613 7 HOH HOH . 
F 3 HOH B 14 614 39 HOH HOH . 
F 3 HOH B 15 615 91 HOH HOH . 
F 3 HOH B 16 616 13 HOH HOH . 
F 3 HOH B 17 617 124 HOH HOH . 
F 3 HOH B 18 618 64 HOH HOH . 
F 3 HOH B 19 619 3 HOH HOH . 
F 3 HOH B 20 620 68 HOH HOH . 
F 3 HOH B 21 621 114 HOH HOH . 
F 3 HOH B 22 622 19 HOH HOH . 
F 3 HOH B 23 623 35 HOH HOH . 
F 3 HOH B 24 624 69 HOH HOH . 
F 3 HOH B 25 625 66 HOH HOH . 
F 3 HOH B 26 626 113 HOH HOH . 
F 3 HOH B 27 627 23 HOH HOH . 
F 3 HOH B 28 628 45 HOH HOH . 
F 3 HOH B 29 629 71 HOH HOH . 
F 3 HOH B 30 630 123 HOH HOH . 
F 3 HOH B 31 631 57 HOH HOH . 
F 3 HOH B 32 632 74 HOH HOH . 
F 3 HOH B 33 633 26 HOH HOH . 
F 3 HOH B 34 634 120 HOH HOH . 
F 3 HOH B 35 635 106 HOH HOH . 
F 3 HOH B 36 636 22 HOH HOH . 
F 3 HOH B 37 637 75 HOH HOH . 
F 3 HOH B 38 638 88 HOH HOH . 
F 3 HOH B 39 639 105 HOH HOH . 
F 3 HOH B 40 640 121 HOH HOH . 
F 3 HOH B 41 641 29 HOH HOH . 
F 3 HOH B 42 642 5 HOH HOH . 
F 3 HOH B 43 643 116 HOH HOH . 
F 3 HOH B 44 644 47 HOH HOH . 
F 3 HOH B 45 645 112 HOH HOH . 
F 3 HOH B 46 646 14 HOH HOH . 
F 3 HOH B 47 647 101 HOH HOH . 
F 3 HOH B 48 648 73 HOH HOH . 
F 3 HOH B 49 649 119 HOH HOH . 
F 3 HOH B 50 650 100 HOH HOH . 
F 3 HOH B 51 651 141 HOH HOH . 
F 3 HOH B 52 652 130 HOH HOH . 
F 3 HOH B 53 653 155 HOH HOH . 
F 3 HOH B 54 654 33 HOH HOH . 
F 3 HOH B 55 655 93 HOH HOH . 
F 3 HOH B 56 656 126 HOH HOH . 
F 3 HOH B 57 657 140 HOH HOH . 
F 3 HOH B 58 658 143 HOH HOH . 
F 3 HOH B 59 659 118 HOH HOH . 
F 3 HOH B 60 660 95 HOH HOH . 
F 3 HOH B 61 661 136 HOH HOH . 
F 3 HOH B 62 662 18 HOH HOH . 
F 3 HOH B 63 663 157 HOH HOH . 
F 3 HOH B 64 664 60 HOH HOH . 
F 3 HOH B 65 665 156 HOH HOH . 
F 3 HOH B 66 666 111 HOH HOH . 
F 3 HOH B 67 667 28 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 C1 2UQ . . . D 2 -74.067 -18.117 43.126 1 57.76 ? C1 2UQ 501 B 1 
HETATM 2 C C2 2UQ . . . D 2 -73.912 -19.31 42.39 1 56.39 ? C2 2UQ 501 B 1 
HETATM 3 C C11 2UQ . . . D 2 -76.698 -18.555 47.067 1 93.75 ? C11 2UQ 501 B 1 
HETATM 4 C C12 2UQ . . . D 2 -70.97 -18.533 40.134 1 33.84 ? C12 2UQ 501 B 1 
HETATM 5 C C14 2UQ . . . D 2 -76.688 -19.815 47.682 1 97.19 ? C14 2UQ 501 B 1 
HETATM 6 C C15 2UQ . . . D 2 -76.355 -19.932 49.038 1 101.15 ? C15 2UQ 501 B 1 
HETATM 7 C C16 2UQ . . . D 2 -76.042 -18.789 49.788 1 105.07 ? C16 2UQ 501 B 1 
HETATM 8 C C17 2UQ . . . D 2 -76.068 -17.53 49.177 1 103.83 ? C17 2UQ 501 B 1 
HETATM 9 C C18 2UQ . . . D 2 -76.407 -17.406 47.819 1 96.97 ? C18 2UQ 501 B 1 
HETATM 10 N N3 2UQ . . . D 2 -72.93 -19.444 41.447 1 50.34 ? N3 2UQ 501 B 1 
HETATM 11 C C4 2UQ . . . D 2 -72.065 -18.425 41.181 1 40.53 ? C4 2UQ 501 B 1 
HETATM 12 N N5 2UQ . . . D 2 -72.203 -17.274 41.884 1 50.54 ? N5 2UQ 501 B 1 
HETATM 13 C C6 2UQ . . . D 2 -73.156 -17.101 42.826 1 53.81 ? C6 2UQ 501 B 1 
HETATM 14 C C7 2UQ . . . D 2 -75.127 -17.848 44.201 1 69.05 ? C7 2UQ 501 B 1 
HETATM 15 O O8 2UQ . . . D 2 -75.123 -16.743 44.729 1 64.53 ? O8 2UQ 501 B 1 
HETATM 16 N N9 2UQ . . . D 2 -76.061 -18.741 44.592 1 78.92 ? N9 2UQ 501 B 1 
HETATM 17 C C10 2UQ . . . D 2 -77.084 -18.444 45.609 1 83.33 ? C10 2UQ 501 B 1 
HETATM 18 N N13 2UQ . . . D 2 -71.204 -19.329 39.17 1 33.33 ? N13 2UQ 501 B 1 
#
_model_server_stats.io_time_ms              68 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           310 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           18 
#