data_8DT4
#
_model_server_result.job_id            0KR7FQRQYDeR1x-iArhMBw 
_model_server_result.datetime_utc      '2024-11-15 13:52:53' 
_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          8dt4 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":602}' 
#
_entry.id    8DT4 
#
_exptl.entry_id    8DT4 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              258.276 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "1,1'-methylenebis{4-[(E)-(hydroxyimino)methyl]pyridin-1-ium}" 
_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            8DT4 
_cell.length_a            124.503 
_cell.length_b            124.503 
_cell.length_c            129.093 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8DT4 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        144 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 31' 
#
_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,I,J,K,L,M,N 
_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 J 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
disulf ? disulf1 A SG CYS 72 A CYS 69 1_555 A SG CYS 99 A CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf2 A SG CYS 260 A CYS 257 1_555 A SG CYS 275 A CYS 272 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf3 A SG CYS 412 A CYS 409 1_555 A SG CYS 532 A CYS 529 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
disulf ? disulf4 B SG CYS 72 B CYS 69 1_555 B SG CYS 99 B CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf5 B SG CYS 260 B CYS 257 1_555 B SG CYS 275 B CYS 272 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf6 B SG CYS 412 B CYS 409 1_555 B SG CYS 532 B CYS 529 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? 
#
_chem_comp.formula           'C13 H14 N4 O2 2' 
_chem_comp.formula_weight    258.276 
_chem_comp.id                3VI 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "1,1'-methylenebis{4-[(E)-(hydroxyimino)methyl]pyridin-1-ium}" 
_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
OAA NAN 3VI sing 1 n n 
NAN CAC 3VI doub 2 e n 
CAC CAP 3VI sing 3 n n 
CAP CAE 3VI doub 4 n y 
CAP CAF 3VI sing 5 n y 
CAE CAI 3VI sing 6 n y 
CAF CAJ 3VI doub 7 n y 
CAI NAR 3VI doub 8 n y 
CAJ NAR 3VI sing 9 n y 
NAR CAM 3VI sing 10 n n 
CAM NAS 3VI sing 11 n n 
NAS CAK 3VI doub 12 n y 
NAS CAL 3VI sing 13 n y 
CAK CAG 3VI sing 14 n y 
CAL CAH 3VI doub 15 n y 
CAG CAQ 3VI doub 16 n y 
CAH CAQ 3VI sing 17 n y 
CAQ CAD 3VI sing 18 n n 
CAD NAO 3VI doub 19 e n 
NAO OAB 3VI sing 20 n n 
CAC H1 3VI sing 21 n n 
CAD H2 3VI sing 22 n n 
CAE H3 3VI sing 23 n n 
CAF H4 3VI sing 24 n n 
CAG H5 3VI sing 25 n n 
CAH H6 3VI sing 26 n n 
CAI H7 3VI sing 27 n n 
CAJ H8 3VI sing 28 n n 
CAK H9 3VI sing 29 n n 
CAL H10 3VI sing 30 n n 
CAM H11 3VI sing 31 n n 
CAM H12 3VI sing 32 n n 
OAA H13 3VI sing 33 n n 
OAB H14 3VI sing 34 n n 
#
_atom_sites.entry_id                     8DT4 
_atom_sites.fract_transf_matrix[1][1]    0.008032 
_atom_sites.fract_transf_matrix[1][2]    0.004637 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.009274 
_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]    0.007746 
_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 DEP A 1 601 604 DEP DEP . 
D 3 3VI A 1 602 2 3VI DRG . 
E 4 GOL A 1 603 2 GOL GOL . 
F 4 GOL A 1 604 5 GOL GOL . 
G 4 GOL A 1 605 8 GOL GOL . 
H 4 GOL A 1 606 9 GOL GOL . 
I 2 DEP B 1 601 604 DEP DEP . 
J 3 3VI B 1 602 1 3VI DRG . 
K 4 GOL B 1 603 4 GOL GOL . 
L 4 GOL B 1 604 6 GOL GOL . 
M 5 HOH A 1 701 9 HOH HOH . 
M 5 HOH A 2 702 19 HOH HOH . 
M 5 HOH A 3 703 47 HOH HOH . 
M 5 HOH A 4 704 77 HOH HOH . 
M 5 HOH A 5 705 16 HOH HOH . 
M 5 HOH A 6 706 34 HOH HOH . 
M 5 HOH A 7 707 112 HOH HOH . 
M 5 HOH A 8 708 103 HOH HOH . 
M 5 HOH A 9 709 114 HOH HOH . 
M 5 HOH A 10 710 83 HOH HOH . 
M 5 HOH A 11 711 64 HOH HOH . 
M 5 HOH A 12 712 91 HOH HOH . 
M 5 HOH A 13 713 88 HOH HOH . 
M 5 HOH A 14 714 28 HOH HOH . 
M 5 HOH A 15 715 35 HOH HOH . 
M 5 HOH A 16 716 20 HOH HOH . 
M 5 HOH A 17 717 26 HOH HOH . 
M 5 HOH A 18 718 37 HOH HOH . 
M 5 HOH A 19 719 79 HOH HOH . 
M 5 HOH A 20 720 141 HOH HOH . 
M 5 HOH A 21 721 71 HOH HOH . 
M 5 HOH A 22 722 124 HOH HOH . 
M 5 HOH A 23 723 65 HOH HOH . 
M 5 HOH A 24 724 115 HOH HOH . 
M 5 HOH A 25 725 128 HOH HOH . 
M 5 HOH A 26 726 33 HOH HOH . 
M 5 HOH A 27 727 18 HOH HOH . 
M 5 HOH A 28 728 30 HOH HOH . 
M 5 HOH A 29 729 12 HOH HOH . 
M 5 HOH A 30 730 23 HOH HOH . 
M 5 HOH A 31 731 92 HOH HOH . 
M 5 HOH A 32 732 70 HOH HOH . 
M 5 HOH A 33 733 89 HOH HOH . 
M 5 HOH A 34 734 134 HOH HOH . 
M 5 HOH A 35 735 95 HOH HOH . 
M 5 HOH A 36 736 45 HOH HOH . 
M 5 HOH A 37 737 40 HOH HOH . 
M 5 HOH A 38 738 42 HOH HOH . 
M 5 HOH A 39 739 63 HOH HOH . 
M 5 HOH A 40 740 105 HOH HOH . 
M 5 HOH A 41 741 10 HOH HOH . 
M 5 HOH A 42 742 15 HOH HOH . 
M 5 HOH A 43 743 27 HOH HOH . 
M 5 HOH A 44 744 36 HOH HOH . 
M 5 HOH A 45 745 1 HOH HOH . 
M 5 HOH A 46 746 106 HOH HOH . 
M 5 HOH A 47 747 163 HOH HOH . 
M 5 HOH A 48 748 162 HOH HOH . 
M 5 HOH A 49 749 109 HOH HOH . 
M 5 HOH A 50 750 75 HOH HOH . 
M 5 HOH A 51 751 159 HOH HOH . 
M 5 HOH A 52 752 160 HOH HOH . 
M 5 HOH A 53 753 97 HOH HOH . 
M 5 HOH A 54 754 66 HOH HOH . 
M 5 HOH A 55 755 135 HOH HOH . 
M 5 HOH A 56 756 130 HOH HOH . 
M 5 HOH A 57 757 152 HOH HOH . 
M 5 HOH A 58 758 87 HOH HOH . 
M 5 HOH A 59 759 129 HOH HOH . 
M 5 HOH A 60 760 6 HOH HOH . 
M 5 HOH A 61 761 111 HOH HOH . 
M 5 HOH A 62 762 119 HOH HOH . 
M 5 HOH A 63 763 144 HOH HOH . 
M 5 HOH A 64 764 81 HOH HOH . 
M 5 HOH A 65 765 150 HOH HOH . 
M 5 HOH A 66 766 98 HOH HOH . 
M 5 HOH A 67 767 132 HOH HOH . 
M 5 HOH A 68 768 84 HOH HOH . 
M 5 HOH A 69 769 96 HOH HOH . 
M 5 HOH A 70 770 139 HOH HOH . 
M 5 HOH A 71 771 100 HOH HOH . 
N 5 HOH B 1 701 138 HOH HOH . 
N 5 HOH B 2 702 126 HOH HOH . 
N 5 HOH B 3 703 4 HOH HOH . 
N 5 HOH B 4 704 52 HOH HOH . 
N 5 HOH B 5 705 93 HOH HOH . 
N 5 HOH B 6 706 48 HOH HOH . 
N 5 HOH B 7 707 143 HOH HOH . 
N 5 HOH B 8 708 13 HOH HOH . 
N 5 HOH B 9 709 39 HOH HOH . 
N 5 HOH B 10 710 140 HOH HOH . 
N 5 HOH B 11 711 110 HOH HOH . 
N 5 HOH B 12 712 7 HOH HOH . 
N 5 HOH B 13 713 82 HOH HOH . 
N 5 HOH B 14 714 43 HOH HOH . 
N 5 HOH B 15 715 21 HOH HOH . 
N 5 HOH B 16 716 90 HOH HOH . 
N 5 HOH B 17 717 121 HOH HOH . 
N 5 HOH B 18 718 54 HOH HOH . 
N 5 HOH B 19 719 56 HOH HOH . 
N 5 HOH B 20 720 31 HOH HOH . 
N 5 HOH B 21 721 145 HOH HOH . 
N 5 HOH B 22 722 117 HOH HOH . 
N 5 HOH B 23 723 94 HOH HOH . 
N 5 HOH B 24 724 24 HOH HOH . 
N 5 HOH B 25 725 153 HOH HOH . 
N 5 HOH B 26 726 131 HOH HOH . 
N 5 HOH B 27 727 53 HOH HOH . 
N 5 HOH B 28 728 146 HOH HOH . 
N 5 HOH B 29 729 3 HOH HOH . 
N 5 HOH B 30 730 57 HOH HOH . 
N 5 HOH B 31 731 50 HOH HOH . 
N 5 HOH B 32 732 68 HOH HOH . 
N 5 HOH B 33 733 51 HOH HOH . 
N 5 HOH B 34 734 44 HOH HOH . 
N 5 HOH B 35 735 107 HOH HOH . 
N 5 HOH B 36 736 104 HOH HOH . 
N 5 HOH B 37 737 137 HOH HOH . 
N 5 HOH B 38 738 14 HOH HOH . 
N 5 HOH B 39 739 62 HOH HOH . 
N 5 HOH B 40 740 80 HOH HOH . 
N 5 HOH B 41 741 25 HOH HOH . 
N 5 HOH B 42 742 118 HOH HOH . 
N 5 HOH B 43 743 147 HOH HOH . 
N 5 HOH B 44 744 22 HOH HOH . 
N 5 HOH B 45 745 101 HOH HOH . 
N 5 HOH B 46 746 125 HOH HOH . 
N 5 HOH B 47 747 122 HOH HOH . 
N 5 HOH B 48 748 11 HOH HOH . 
N 5 HOH B 49 749 29 HOH HOH . 
N 5 HOH B 50 750 32 HOH HOH . 
N 5 HOH B 51 751 58 HOH HOH . 
N 5 HOH B 52 752 142 HOH HOH . 
N 5 HOH B 53 753 133 HOH HOH . 
N 5 HOH B 54 754 5 HOH HOH . 
N 5 HOH B 55 755 99 HOH HOH . 
N 5 HOH B 56 756 8 HOH HOH . 
N 5 HOH B 57 757 123 HOH HOH . 
N 5 HOH B 58 758 72 HOH HOH . 
N 5 HOH B 59 759 158 HOH HOH . 
N 5 HOH B 60 760 155 HOH HOH . 
N 5 HOH B 61 761 76 HOH HOH . 
N 5 HOH B 62 762 85 HOH HOH . 
N 5 HOH B 63 763 17 HOH HOH . 
N 5 HOH B 64 764 78 HOH HOH . 
N 5 HOH B 65 765 120 HOH HOH . 
N 5 HOH B 66 766 154 HOH HOH . 
N 5 HOH B 67 767 55 HOH HOH . 
N 5 HOH B 68 768 86 HOH HOH . 
N 5 HOH B 69 769 157 HOH HOH . 
N 5 HOH B 70 770 69 HOH HOH . 
N 5 HOH B 71 771 156 HOH HOH . 
N 5 HOH B 72 772 2 HOH HOH . 
N 5 HOH B 73 773 151 HOH HOH . 
N 5 HOH B 74 774 149 HOH HOH . 
N 5 HOH B 75 775 127 HOH HOH . 
N 5 HOH B 76 776 113 HOH HOH . 
N 5 HOH B 77 777 102 HOH HOH . 
N 5 HOH B 78 778 161 HOH HOH . 
N 5 HOH B 79 779 61 HOH HOH . 
N 5 HOH B 80 780 60 HOH HOH . 
N 5 HOH B 81 781 38 HOH HOH . 
N 5 HOH B 82 782 59 HOH HOH . 
N 5 HOH B 83 783 49 HOH HOH . 
N 5 HOH B 84 784 108 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 CAC 3VI . . . J 3 -4.587 39.738 -10.615 1 53.76 ? CAC 3VI 602 B 1 
HETATM 2 C CAD 3VI . . . J 3 -0.831 40.566 -1.87 1 112.08 ? CAD 3VI 602 B 1 
HETATM 3 C CAE 3VI . . . J 3 -2.841 40.464 -9.117 1 88.03 ? CAE 3VI 602 B 1 
HETATM 4 C CAF 3VI . . . J 3 -3.201 38.113 -9.518 1 56.06 ? CAF 3VI 602 B 1 
HETATM 5 C CAG 3VI . . . J 3 -1.846 39.552 -3.806 1 96.48 ? CAG 3VI 602 B 1 
HETATM 6 C CAH 3VI . . . J 3 0.517 40.033 -3.787 1 93.19 ? CAH 3VI 602 B 1 
HETATM 7 C CAI 3VI . . . J 3 -1.793 40.164 -8.25 1 78.55 ? CAI 3VI 602 B 1 
HETATM 8 C CAJ 3VI . . . J 3 -2.159 37.798 -8.655 1 61.59 ? CAJ 3VI 602 B 1 
HETATM 9 C CAK 3VI . . . J 3 -1.739 39.032 -5.091 1 104.32 ? CAK 3VI 602 B 1 
HETATM 10 C CAL 3VI . . . J 3 0.636 39.518 -5.071 1 80.84 ? CAL 3VI 602 B 1 
HETATM 11 C CAM 3VI . . . J 3 -0.337 38.47 -7.098 1 70.11 ? CAM 3VI 602 B 1 
HETATM 12 C CAP 3VI . . . J 3 -3.541 39.441 -9.749 1 74.33 ? CAP 3VI 602 B 1 
HETATM 13 C CAQ 3VI . . . J 3 -0.721 40.05 -3.156 1 110.9 ? CAQ 3VI 602 B 1 
HETATM 14 N NAN 3VI . . . J 3 -5.225 38.665 -11.106 1 57.36 ? NAN 3VI 602 B 1 
HETATM 15 N NAO 3VI . . . J 3 0.334 40.727 -1.226 1 112.7 ? NAO 3VI 602 B 1 
HETATM 16 N NAR 3VI . . . J 3 -1.451 38.823 -8.012 1 80.35 ? NAR 3VI 602 B 1 
HETATM 17 N NAS 3VI . . . J 3 -0.492 39.018 -5.731 1 93.09 ? NAS 3VI 602 B 1 
HETATM 18 O OAA 3VI . . . J 3 -6.315 38.907 -12.005 1 68.32 ? OAA 3VI 602 B 1 
HETATM 19 O OAB 3VI . . . J 3 0.275 41.264 0.133 1 102.1 ? OAB 3VI 602 B 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           18 
_model_server_stats.create_model_time_ms    47 
_model_server_stats.query_time_ms           298 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           19 
#