data_5M5J
#
_model_server_result.job_id            ZmSmCoCP4UB6wD3mAd0ejg 
_model_server_result.datetime_utc      '2024-11-09 01:42:45' 
_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          5m5j 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":1001}' 
#
_entry.id    5M5J 
#
_exptl.entry_id    5M5J 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              785.55 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'FLAVIN-ADENINE DINUCLEOTIDE' 
_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         90 
_cell.entry_id            5M5J 
_cell.length_a            85.643 
_cell.length_b            85.643 
_cell.length_c            163.221 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5M5J 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41 21 2' 
#
_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 
_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
? 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
disulf ? disulf1 A SG CYS 148 A CYS 137 1_555 A SG CYS 151 A CYS 140 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? 
disulf ? disulf2 B SG CYS 148 B CYS 137 1_555 B SG CYS 151 B CYS 140 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? 
metalc ? metalc1 B OE2 GLU 93 B GLU 82 1_555 E NA NA . B NA 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.677 ? 
metalc ? metalc2 B OE2 GLU 114 B GLU 103 1_555 E NA NA . B NA 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.75 ? 
#
_chem_comp.formula           'C27 H33 N9 O15 P2' 
_chem_comp.formula_weight    785.55 
_chem_comp.id                FAD 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'FLAVIN-ADENINE DINUCLEOTIDE' 
_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
PA O1A FAD doub 83 n n 
PA O2A FAD sing 84 n n 
PA O5B FAD sing 85 n n 
PA O3P FAD sing 86 n n 
O2A HOA2 FAD sing 87 n n 
O5B C5B FAD sing 88 n n 
C5B C4B FAD sing 89 n n 
C5B H51A FAD sing 90 n n 
C5B H52A FAD sing 91 n n 
C4B O4B FAD sing 92 n n 
C4B C3B FAD sing 93 n n 
C4B H4B FAD sing 94 n n 
O4B C1B FAD sing 95 n n 
C3B O3B FAD sing 96 n n 
C3B C2B FAD sing 97 n n 
C3B H3B FAD sing 98 n n 
O3B HO3A FAD sing 99 n n 
C2B O2B FAD sing 100 n n 
C2B C1B FAD sing 101 n n 
C2B H2B FAD sing 102 n n 
O2B HO2A FAD sing 103 n n 
C1B N9A FAD sing 104 n n 
C1B H1B FAD sing 105 n n 
N9A C8A FAD sing 106 n y 
N9A C4A FAD sing 107 n y 
C8A N7A FAD doub 108 n y 
C8A H8A FAD sing 109 n n 
N7A C5A FAD sing 110 n y 
C5A C6A FAD sing 111 n y 
C5A C4A FAD doub 112 n y 
C6A N6A FAD sing 113 n n 
C6A N1A FAD doub 114 n y 
N6A H61A FAD sing 115 n n 
N6A H62A FAD sing 116 n n 
N1A C2A FAD sing 117 n y 
C2A N3A FAD doub 118 n y 
C2A H2A FAD sing 119 n n 
N3A C4A FAD sing 120 n y 
N1 C2 FAD sing 121 n n 
N1 C10 FAD doub 122 n n 
C2 O2 FAD doub 123 n n 
C2 N3 FAD sing 124 n n 
N3 C4 FAD sing 125 n n 
N3 HN3 FAD sing 126 n n 
C4 O4 FAD doub 127 n n 
C4 C4X FAD sing 128 n n 
C4X N5 FAD doub 129 n n 
C4X C10 FAD sing 130 n n 
N5 C5X FAD sing 131 n n 
C5X C6 FAD doub 132 n y 
C5X C9A FAD sing 133 n y 
C6 C7 FAD sing 134 n y 
C6 H6 FAD sing 135 n n 
C7 C7M FAD sing 136 n n 
C7 C8 FAD doub 137 n y 
C7M HM71 FAD sing 138 n n 
C7M HM72 FAD sing 139 n n 
C7M HM73 FAD sing 140 n n 
C8 C8M FAD sing 141 n n 
C8 C9 FAD sing 142 n y 
C8M HM81 FAD sing 143 n n 
C8M HM82 FAD sing 144 n n 
C8M HM83 FAD sing 145 n n 
C9 C9A FAD doub 146 n y 
C9 H9 FAD sing 147 n n 
C9A N10 FAD sing 148 n n 
N10 C10 FAD sing 149 n n 
N10 C1' FAD sing 150 n n 
C1' C2' FAD sing 151 n n 
C1' "H1'1" FAD sing 152 n n 
C1' "H1'2" FAD sing 153 n n 
C2' O2' FAD sing 154 n n 
C2' C3' FAD sing 155 n n 
C2' H2' FAD sing 156 n n 
O2' HO2' FAD sing 157 n n 
C3' O3' FAD sing 158 n n 
C3' C4' FAD sing 159 n n 
C3' H3' FAD sing 160 n n 
O3' HO3' FAD sing 161 n n 
C4' O4' FAD sing 162 n n 
C4' C5' FAD sing 163 n n 
C4' H4' FAD sing 164 n n 
O4' HO4' FAD sing 165 n n 
C5' O5' FAD sing 166 n n 
C5' "H5'1" FAD sing 167 n n 
C5' "H5'2" FAD sing 168 n n 
O5' P FAD sing 169 n n 
P O1P FAD doub 170 n n 
P O2P FAD sing 171 n n 
P O3P FAD sing 172 n n 
O2P HOP2 FAD sing 173 n n 
#
_atom_sites.entry_id                     5M5J 
_atom_sites.fract_transf_matrix[1][1]    0.011676 
_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]    0.011676 
_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]    0.006127 
_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 FAD A 1 1001 1001 FAD FAD . 
D 2 FAD B 1 1001 1001 FAD FAD . 
E 3 NA B 1 1002 1 NA NA . 
F 4 HOH A 1 1101 11 HOH HOH . 
F 4 HOH A 2 1102 15 HOH HOH . 
F 4 HOH A 3 1103 25 HOH HOH . 
F 4 HOH A 4 1104 27 HOH HOH . 
F 4 HOH A 5 1105 14 HOH HOH . 
F 4 HOH A 6 1106 6 HOH HOH . 
F 4 HOH A 7 1107 17 HOH HOH . 
F 4 HOH A 8 1108 32 HOH HOH . 
F 4 HOH A 9 1109 8 HOH HOH . 
F 4 HOH A 10 1110 18 HOH HOH . 
F 4 HOH A 11 1111 13 HOH HOH . 
F 4 HOH A 12 1112 5 HOH HOH . 
F 4 HOH A 13 1113 34 HOH HOH . 
F 4 HOH A 14 1114 19 HOH HOH . 
F 4 HOH A 15 1115 7 HOH HOH . 
F 4 HOH A 16 1116 9 HOH HOH . 
F 4 HOH A 17 1117 26 HOH HOH . 
F 4 HOH A 18 1118 16 HOH HOH . 
F 4 HOH A 19 1119 21 HOH HOH . 
F 4 HOH A 20 1120 23 HOH HOH . 
G 4 HOH B 1 1101 22 HOH HOH . 
G 4 HOH B 2 1102 38 HOH HOH . 
G 4 HOH B 3 1103 1 HOH HOH . 
G 4 HOH B 4 1104 39 HOH HOH . 
G 4 HOH B 5 1105 10 HOH HOH . 
G 4 HOH B 6 1106 3 HOH HOH . 
G 4 HOH B 7 1107 2 HOH HOH . 
G 4 HOH B 8 1108 40 HOH HOH . 
G 4 HOH B 9 1109 35 HOH HOH . 
G 4 HOH B 10 1110 4 HOH HOH . 
G 4 HOH B 11 1111 37 HOH HOH . 
G 4 HOH B 12 1112 12 HOH HOH . 
G 4 HOH B 13 1113 36 HOH HOH . 
G 4 HOH B 14 1114 30 HOH HOH . 
G 4 HOH B 15 1115 33 HOH HOH . 
G 4 HOH B 16 1116 28 HOH HOH . 
G 4 HOH B 17 1117 24 HOH HOH . 
G 4 HOH B 18 1118 31 HOH HOH . 
G 4 HOH B 19 1119 29 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 PA FAD . . . D 2 -11.836 -0.53 -19.413 1 27.73 ? PA FAD 1001 B 1 
HETATM 2 O O1A FAD . . . D 2 -11.42 -1.973 -19.311 1 28.04 ? O1A FAD 1001 B 1 
HETATM 3 O O2A FAD . . . D 2 -12.035 0.064 -20.776 1 28.03 ? O2A FAD 1001 B 1 
HETATM 4 O O5B FAD . . . D 2 -10.705 0.329 -18.669 1 29.11 ? O5B FAD 1001 B 1 
HETATM 5 C C5B FAD . . . D 2 -10.247 -0.065 -17.381 1 28.81 ? C5B FAD 1001 B 1 
HETATM 6 C C4B FAD . . . D 2 -9.148 0.896 -16.97 1 28.31 ? C4B FAD 1001 B 1 
HETATM 7 O O4B FAD . . . D 2 -8.907 0.813 -15.565 1 28.67 ? O4B FAD 1001 B 1 
HETATM 8 C C3B FAD . . . D 2 -7.81 0.606 -17.628 1 27.68 ? C3B FAD 1001 B 1 
HETATM 9 O O3B FAD . . . D 2 -7.194 1.845 -18.006 1 26.51 ? O3B FAD 1001 B 1 
HETATM 10 C C2B FAD . . . D 2 -7.015 -0.111 -16.549 1 27.59 ? C2B FAD 1001 B 1 
HETATM 11 O O2B FAD . . . D 2 -5.606 0.031 -16.675 1 26.54 ? O2B FAD 1001 B 1 
HETATM 12 C C1B FAD . . . D 2 -7.504 0.652 -15.347 1 28.14 ? C1B FAD 1001 B 1 
HETATM 13 N N9A FAD . . . D 2 -7.263 0.014 -14.039 1 28.79 ? N9A FAD 1001 B 1 
HETATM 14 C C8A FAD . . . D 2 -7.793 -1.128 -13.558 1 28.97 ? C8A FAD 1001 B 1 
HETATM 15 N N7A FAD . . . D 2 -7.341 -1.393 -12.308 1 28.78 ? N7A FAD 1001 B 1 
HETATM 16 C C5A FAD . . . D 2 -6.52 -0.388 -11.984 1 29.01 ? C5A FAD 1001 B 1 
HETATM 17 C C6A FAD . . . D 2 -5.707 -0.025 -10.816 1 29.15 ? C6A FAD 1001 B 1 
HETATM 18 N N6A FAD . . . D 2 -5.695 -0.81 -9.721 1 29.73 ? N6A FAD 1001 B 1 
HETATM 19 N N1A FAD . . . D 2 -4.985 1.117 -10.892 1 29.45 ? N1A FAD 1001 B 1 
HETATM 20 C C2A FAD . . . D 2 -4.979 1.921 -11.982 1 28.77 ? C2A FAD 1001 B 1 
HETATM 21 N N3A FAD . . . D 2 -5.702 1.654 -13.078 1 28.77 ? N3A FAD 1001 B 1 
HETATM 22 C C4A FAD . . . D 2 -6.474 0.54 -13.124 1 29.09 ? C4A FAD 1001 B 1 
HETATM 23 N N1 FAD . . . D 2 -17.354 -2.617 -26.463 1 32.7 ? N1 FAD 1001 B 1 
HETATM 24 C C2 FAD . . . D 2 -17.771 -1.923 -27.549 1 30.86 ? C2 FAD 1001 B 1 
HETATM 25 O O2 FAD . . . D 2 -18.446 -0.901 -27.368 1 28.18 ? O2 FAD 1001 B 1 
HETATM 26 N N3 FAD . . . D 2 -17.476 -2.293 -28.807 1 32.17 ? N3 FAD 1001 B 1 
HETATM 27 C C4 FAD . . . D 2 -16.752 -3.384 -29.071 1 32.84 ? C4 FAD 1001 B 1 
HETATM 28 O O4 FAD . . . D 2 -16.517 -3.669 -30.254 1 31.95 ? O4 FAD 1001 B 1 
HETATM 29 C C4X FAD . . . D 2 -16.251 -4.216 -27.934 1 34.99 ? C4X FAD 1001 B 1 
HETATM 30 N N5 FAD . . . D 2 -15.512 -5.339 -28.108 1 37.22 ? N5 FAD 1001 B 1 
HETATM 31 C C5X FAD . . . D 2 -15.081 -6.065 -27.045 1 39.39 ? C5X FAD 1001 B 1 
HETATM 32 C C6 FAD . . . D 2 -14.32 -7.208 -27.29 1 41.5 ? C6 FAD 1001 B 1 
HETATM 33 C C7 FAD . . . D 2 -13.838 -8 -26.244 1 43.41 ? C7 FAD 1001 B 1 
HETATM 34 C C7M FAD . . . D 2 -13.016 -9.23 -26.555 1 43.46 ? C7M FAD 1001 B 1 
HETATM 35 C C8 FAD . . . D 2 -14.146 -7.607 -24.832 1 43.68 ? C8 FAD 1001 B 1 
HETATM 36 C C8M FAD . . . D 2 -13.652 -8.436 -23.671 1 44.96 ? C8M FAD 1001 B 1 
HETATM 37 C C9 FAD . . . D 2 -14.91 -6.459 -24.58 1 41.79 ? C9 FAD 1001 B 1 
HETATM 38 C C9A FAD . . . D 2 -15.4 -5.655 -25.63 1 38.88 ? C9A FAD 1001 B 1 
HETATM 39 N N10 FAD . . . D 2 -16.18 -4.476 -25.427 1 35.61 ? N10 FAD 1001 B 1 
HETATM 40 C C10 FAD . . . D 2 -16.606 -3.747 -26.564 1 34.45 ? C10 FAD 1001 B 1 
HETATM 41 C C1' FAD . . . D 2 -16.573 -3.967 -24.099 1 35.71 ? C1' FAD 1001 B 1 
HETATM 42 C C2' FAD . . . D 2 -15.768 -2.731 -23.713 1 35.33 ? C2' FAD 1001 B 1 
HETATM 43 O O2' FAD . . . D 2 -14.392 -2.914 -24.077 1 37.03 ? O2' FAD 1001 B 1 
HETATM 44 C C3' FAD . . . D 2 -15.893 -2.432 -22.222 1 34.07 ? C3' FAD 1001 B 1 
HETATM 45 O O3' FAD . . . D 2 -17.268 -2.473 -21.805 1 32.08 ? O3' FAD 1001 B 1 
HETATM 46 C C4' FAD . . . D 2 -15.301 -1.057 -21.905 1 33.23 ? C4' FAD 1001 B 1 
HETATM 47 O O4' FAD . . . D 2 -13.912 -0.996 -22.291 1 31.38 ? O4' FAD 1001 B 1 
HETATM 48 C C5' FAD . . . D 2 -15.458 -0.734 -20.416 1 32.04 ? C5' FAD 1001 B 1 
HETATM 49 O O5' FAD . . . D 2 -14.808 0.5 -20.156 1 30.55 ? O5' FAD 1001 B 1 
HETATM 50 P P FAD . . . D 2 -14.24 0.852 -18.707 1 28.64 ? P FAD 1001 B 1 
HETATM 51 O O1P FAD . . . D 2 -13.624 2.226 -18.817 1 28.52 ? O1P FAD 1001 B 1 
HETATM 52 O O2P FAD . . . D 2 -15.375 0.549 -17.772 1 27.94 ? O2P FAD 1001 B 1 
HETATM 53 O O3P FAD . . . D 2 -13.09 -0.251 -18.437 1 28.71 ? O3P FAD 1001 B 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           20 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           321 
_model_server_stats.encode_time_ms          17 
_model_server_stats.element_count           53 
#