data_3GD3
#
_model_server_result.job_id            2BrRk5vpTNeAMV1cUUPV0Q 
_model_server_result.datetime_utc      '2024-11-16 04:34:54' 
_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          3gd3 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":1611}' 
#
_entry.id    3GD3 
#
_exptl.entry_id    3GD3 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              785.55 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'FLAVIN-ADENINE DINUCLEOTIDE' 
_entity.pdbx_number_of_molecules    4 
_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            3GD3 
_cell.length_a            75.05 
_cell.length_b            80.29 
_cell.length_c            419.64 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3GD3 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 author_and_software_defined_assembly 2 
PISA monomeric 1 author_and_software_defined_assembly 3 
PISA monomeric 1 author_and_software_defined_assembly 4 
PISA monomeric 1 author_and_software_defined_assembly 5 
PISA monomeric 1 author_and_software_defined_assembly 6 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,G,K 1 1 
B,H,L 2 1 
C,I,M 3 1 
D,J,N 4 1 
E 5 1 
F 6 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 G N N 
? 3 H N N 
? 3 I N N 
? 3 J N N 
#
_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                     3GD3 
_atom_sites.fract_transf_matrix[1][1]    0.013324 
_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]    0.012455 
_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]    0.002383 
_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
G 3 FAD A 1 1611 1611 FAD FAD . 
H 3 FAD B 1 1611 1611 FAD FAD . 
I 3 FAD C 1 1611 1611 FAD FAD . 
J 3 FAD D 1 1611 1611 FAD FAD . 
K 4 HOH A 1 613 1 HOH HOH . 
K 4 HOH A 2 614 2 HOH HOH . 
K 4 HOH A 3 615 3 HOH HOH . 
K 4 HOH A 4 616 4 HOH HOH . 
K 4 HOH A 5 617 7 HOH HOH . 
K 4 HOH A 6 618 9 HOH HOH . 
K 4 HOH A 7 619 11 HOH HOH . 
K 4 HOH A 8 620 12 HOH HOH . 
K 4 HOH A 9 621 13 HOH HOH . 
K 4 HOH A 10 622 21 HOH HOH . 
K 4 HOH A 11 623 23 HOH HOH . 
K 4 HOH A 12 624 24 HOH HOH . 
K 4 HOH A 13 625 27 HOH HOH . 
L 4 HOH B 1 613 5 HOH HOH . 
L 4 HOH B 2 614 18 HOH HOH . 
L 4 HOH B 3 615 20 HOH HOH . 
M 4 HOH C 1 613 10 HOH HOH . 
M 4 HOH C 2 614 14 HOH HOH . 
M 4 HOH C 3 615 15 HOH HOH . 
M 4 HOH C 4 616 17 HOH HOH . 
M 4 HOH C 5 617 19 HOH HOH . 
M 4 HOH C 6 618 25 HOH HOH . 
M 4 HOH C 7 619 26 HOH HOH . 
N 4 HOH D 1 613 6 HOH HOH . 
N 4 HOH D 2 614 8 HOH HOH . 
N 4 HOH D 3 615 16 HOH HOH . 
N 4 HOH D 4 616 22 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 . . . G 3 5.612 15.572 62.726 1 71.23 ? PA FAD 1611 A 1 
HETATM 2 O O1A FAD . . . G 3 4.354 15.406 63.552 1 70.99 ? O1A FAD 1611 A 1 
HETATM 3 O O2A FAD . . . G 3 5.599 15.579 61.207 1 70 ? O2A FAD 1611 A 1 
HETATM 4 O O5B FAD . . . G 3 6.554 14.385 63.248 1 72.23 ? O5B FAD 1611 A 1 
HETATM 5 C C5B FAD . . . G 3 6.236 13.833 64.517 1 74.57 ? C5B FAD 1611 A 1 
HETATM 6 C C4B FAD . . . G 3 6.29 12.312 64.548 1 75.62 ? C4B FAD 1611 A 1 
HETATM 7 O O4B FAD . . . G 3 6.836 11.95 65.817 1 75.59 ? O4B FAD 1611 A 1 
HETATM 8 C C3B FAD . . . G 3 4.909 11.669 64.484 1 76.19 ? C3B FAD 1611 A 1 
HETATM 9 O O3B FAD . . . G 3 4.888 10.681 63.447 1 76.6 ? O3B FAD 1611 A 1 
HETATM 10 C C2B FAD . . . G 3 4.706 11.039 65.854 1 76.2 ? C2B FAD 1611 A 1 
HETATM 11 O O2B FAD . . . G 3 4.1 9.755 65.792 1 77.33 ? O2B FAD 1611 A 1 
HETATM 12 C C1B FAD . . . G 3 6.113 10.849 66.351 1 76.12 ? C1B FAD 1611 A 1 
HETATM 13 N N9A FAD . . . G 3 6.23 10.841 67.819 1 75.78 ? N9A FAD 1611 A 1 
HETATM 14 C C8A FAD . . . G 3 5.772 11.778 68.655 1 76.42 ? C8A FAD 1611 A 1 
HETATM 15 N N7A FAD . . . G 3 6.076 11.475 69.94 1 76.58 ? N7A FAD 1611 A 1 
HETATM 16 C C5A FAD . . . G 3 6.748 10.314 69.935 1 76.4 ? C5A FAD 1611 A 1 
HETATM 17 C C6A FAD . . . G 3 7.311 9.501 70.904 1 76.24 ? C6A FAD 1611 A 1 
HETATM 18 N N6A FAD . . . G 3 7.237 9.838 72.213 1 75.92 ? N6A FAD 1611 A 1 
HETATM 19 N N1A FAD . . . G 3 7.936 8.368 70.508 1 76.38 ? N1A FAD 1611 A 1 
HETATM 20 C C2A FAD . . . G 3 8.019 8.018 69.209 1 76.79 ? C2A FAD 1611 A 1 
HETATM 21 N N3A FAD . . . G 3 7.493 8.768 68.225 1 76.73 ? N3A FAD 1611 A 1 
HETATM 22 C C4A FAD . . . G 3 6.855 9.905 68.525 1 76.25 ? C4A FAD 1611 A 1 
HETATM 23 N N1 FAD . . . G 3 3.156 23.619 56.497 1 59.09 ? N1 FAD 1611 A 1 
HETATM 24 C C2 FAD . . . G 3 3.424 24.418 55.437 1 58.98 ? C2 FAD 1611 A 1 
HETATM 25 O O2 FAD . . . G 3 4.344 25.261 55.491 1 59.37 ? O2 FAD 1611 A 1 
HETATM 26 N N3 FAD . . . G 3 2.702 24.311 54.309 1 58.94 ? N3 FAD 1611 A 1 
HETATM 27 C C4 FAD . . . G 3 1.704 23.399 54.232 1 58.98 ? C4 FAD 1611 A 1 
HETATM 28 O O4 FAD . . . G 3 1.04 23.301 53.181 1 59.69 ? O4 FAD 1611 A 1 
HETATM 29 C C4X FAD . . . G 3 1.399 22.564 55.291 1 58.51 ? C4X FAD 1611 A 1 
HETATM 30 N N5 FAD . . . G 3 0.396 21.668 55.167 1 58.87 ? N5 FAD 1611 A 1 
HETATM 31 C C5X FAD . . . G 3 0.126 20.857 56.191 1 59.18 ? C5X FAD 1611 A 1 
HETATM 32 C C6 FAD . . . G 3 -0.735 19.953 56.341 1 59.16 ? C6 FAD 1611 A 1 
HETATM 33 C C7 FAD . . . G 3 -1.27 19.065 57.073 1 59.29 ? C7 FAD 1611 A 1 
HETATM 34 C C7M FAD . . . G 3 -2.421 18.16 56.685 1 59.02 ? C7M FAD 1611 A 1 
HETATM 35 C C8 FAD . . . G 3 -0.59 19.09 58.305 1 58.97 ? C8 FAD 1611 A 1 
HETATM 36 C C8M FAD . . . G 3 -0.956 18.153 59.424 1 59.21 ? C8M FAD 1611 A 1 
HETATM 37 C C9 FAD . . . G 3 0.474 20.01 58.498 1 58.42 ? C9 FAD 1611 A 1 
HETATM 38 C C9A FAD . . . G 3 0.868 20.91 57.483 1 59.07 ? C9A FAD 1611 A 1 
HETATM 39 N N10 FAD . . . G 3 1.907 21.863 57.578 1 59.47 ? N10 FAD 1611 A 1 
HETATM 40 C C10 FAD . . . G 3 2.165 22.691 56.453 1 59.1 ? C10 FAD 1611 A 1 
HETATM 41 C C1' FAD . . . G 3 2.715 22.003 58.788 1 59.63 ? C1' FAD 1611 A 1 
HETATM 42 C C2' FAD . . . G 3 4.003 21.192 58.651 1 61.96 ? C2' FAD 1611 A 1 
HETATM 43 O O2' FAD . . . G 3 3.794 20.075 57.8 1 62.19 ? O2' FAD 1611 A 1 
HETATM 44 C C3' FAD . . . G 3 4.464 20.687 60.006 1 62.89 ? C3' FAD 1611 A 1 
HETATM 45 O O3' FAD . . . G 3 4.782 21.835 60.815 1 64.34 ? O3' FAD 1611 A 1 
HETATM 46 C C4' FAD . . . G 3 5.695 19.805 59.878 1 62.9 ? C4' FAD 1611 A 1 
HETATM 47 O O4' FAD . . . G 3 5.42 18.736 58.977 1 61.7 ? O4' FAD 1611 A 1 
HETATM 48 C C5' FAD . . . G 3 6.081 19.248 61.246 1 64.13 ? C5' FAD 1611 A 1 
HETATM 49 O O5' FAD . . . G 3 6.968 18.159 61.084 1 64.58 ? O5' FAD 1611 A 1 
HETATM 50 P P FAD . . . G 3 7.596 17.472 62.367 1 65.13 ? P FAD 1611 A 1 
HETATM 51 O O1P FAD . . . G 3 8.345 16.27 61.87 1 65.57 ? O1P FAD 1611 A 1 
HETATM 52 O O2P FAD . . . G 3 8.305 18.529 63.179 1 65.53 ? O2P FAD 1611 A 1 
HETATM 53 O O3P FAD . . . G 3 6.331 16.934 63.187 1 67.87 ? O3P FAD 1611 A 1 
#
_model_server_stats.io_time_ms              125 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    35 
_model_server_stats.query_time_ms           290 
_model_server_stats.encode_time_ms          10 
_model_server_stats.element_count           53 
#