data_5VPN
#
_model_server_result.job_id            NSdhhhRwdLQ4JaPVOAqZZA 
_model_server_result.datetime_utc      '2024-12-26 17:04:52' 
_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          5vpn 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"I","auth_seq_id":601}' 
#
_entry.id    5VPN 
#
_exptl.entry_id    5VPN 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              785.55 
_entity.id                          5 
_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            5VPN 
_cell.length_a            133.565 
_cell.length_b            138.134 
_cell.length_c            220.079 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5VPN 
_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 tetrameric 4 author_and_software_defined_assembly 1 
PISA tetrameric 4 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D,I,J,K,L 1 1 
E,F,G,H,M,N,O,P 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
? 5 I N N 
? 5 M N N 
#
_struct_conn.conn_type_id                   metalc 
_struct_conn.details                        ? 
_struct_conn.id                             metalc1 
_struct_conn.ptnr1_label_asym_id            F 
_struct_conn.ptnr1_label_atom_id            SG 
_struct_conn.ptnr1_label_comp_id            CYS 
_struct_conn.ptnr1_label_seq_id             154 
_struct_conn.ptnr1_auth_asym_id             F 
_struct_conn.ptnr1_auth_comp_id             CYS 
_struct_conn.ptnr1_auth_seq_id              154 
_struct_conn.ptnr1_symmetry                 1_555 
_struct_conn.ptnr2_label_asym_id            P 
_struct_conn.ptnr2_label_atom_id            FE2 
_struct_conn.ptnr2_label_comp_id            SF4 
_struct_conn.ptnr2_label_seq_id             . 
_struct_conn.ptnr2_auth_asym_id             F 
_struct_conn.ptnr2_auth_comp_id             SF4 
_struct_conn.ptnr2_auth_seq_id              303 
_struct_conn.ptnr2_symmetry                 1_555 
_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                2.7 
_struct_conn.pdbx_value_order               ? 
#
_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 92 n n 
PA O2A FAD sing 93 n n 
PA O5B FAD sing 94 n n 
PA O3P FAD sing 95 n n 
O2A HOA2 FAD sing 96 n n 
O5B C5B FAD sing 97 n n 
C5B C4B FAD sing 98 n n 
C5B H51A FAD sing 99 n n 
C5B H52A FAD sing 100 n n 
C4B O4B FAD sing 101 n n 
C4B C3B FAD sing 102 n n 
C4B H4B FAD sing 103 n n 
O4B C1B FAD sing 104 n n 
C3B O3B FAD sing 105 n n 
C3B C2B FAD sing 106 n n 
C3B H3B FAD sing 107 n n 
O3B HO3A FAD sing 108 n n 
C2B O2B FAD sing 109 n n 
C2B C1B FAD sing 110 n n 
C2B H2B FAD sing 111 n n 
O2B HO2A FAD sing 112 n n 
C1B N9A FAD sing 113 n n 
C1B H1B FAD sing 114 n n 
N9A C8A FAD sing 115 n y 
N9A C4A FAD sing 116 n y 
C8A N7A FAD doub 117 n y 
C8A H8A FAD sing 118 n n 
N7A C5A FAD sing 119 n y 
C5A C6A FAD sing 120 n y 
C5A C4A FAD doub 121 n y 
C6A N6A FAD sing 122 n n 
C6A N1A FAD doub 123 n y 
N6A H61A FAD sing 124 n n 
N6A H62A FAD sing 125 n n 
N1A C2A FAD sing 126 n y 
C2A N3A FAD doub 127 n y 
C2A H2A FAD sing 128 n n 
N3A C4A FAD sing 129 n y 
N1 C2 FAD sing 130 n n 
N1 C10 FAD doub 131 n n 
C2 O2 FAD doub 132 n n 
C2 N3 FAD sing 133 n n 
N3 C4 FAD sing 134 n n 
N3 HN3 FAD sing 135 n n 
C4 O4 FAD doub 136 n n 
C4 C4X FAD sing 137 n n 
C4X N5 FAD doub 138 n n 
C4X C10 FAD sing 139 n n 
N5 C5X FAD sing 140 n n 
C5X C6 FAD doub 141 n y 
C5X C9A FAD sing 142 n y 
C6 C7 FAD sing 143 n y 
C6 H6 FAD sing 144 n n 
C7 C7M FAD sing 145 n n 
C7 C8 FAD doub 146 n y 
C7M HM71 FAD sing 147 n n 
C7M HM72 FAD sing 148 n n 
C7M HM73 FAD sing 149 n n 
C8 C8M FAD sing 150 n n 
C8 C9 FAD sing 151 n y 
C8M HM81 FAD sing 152 n n 
C8M HM82 FAD sing 153 n n 
C8M HM83 FAD sing 154 n n 
C9 C9A FAD doub 155 n y 
C9 H9 FAD sing 156 n n 
C9A N10 FAD sing 157 n n 
N10 C10 FAD sing 158 n n 
N10 C1' FAD sing 159 n n 
C1' C2' FAD sing 160 n n 
C1' "H1'1" FAD sing 161 n n 
C1' "H1'2" FAD sing 162 n n 
C2' O2' FAD sing 163 n n 
C2' C3' FAD sing 164 n n 
C2' H2' FAD sing 165 n n 
O2' HO2' FAD sing 166 n n 
C3' O3' FAD sing 167 n n 
C3' C4' FAD sing 168 n n 
C3' H3' FAD sing 169 n n 
O3' HO3' FAD sing 170 n n 
C4' O4' FAD sing 171 n n 
C4' C5' FAD sing 172 n n 
C4' H4' FAD sing 173 n n 
O4' HO4' FAD sing 174 n n 
C5' O5' FAD sing 175 n n 
C5' "H5'1" FAD sing 176 n n 
C5' "H5'2" FAD sing 177 n n 
O5' P FAD sing 178 n n 
P O1P FAD doub 179 n n 
P O2P FAD sing 180 n n 
P O3P FAD sing 181 n n 
O2P HOP2 FAD sing 182 n n 
#
_atom_sites.entry_id                     5VPN 
_atom_sites.fract_transf_matrix[1][1]    0.007487 
_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]    0.007239 
_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]    0.004544 
_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
I 5 FAD A 1 601 703 FAD FAD . 
J 6 FES B 1 301 244 FES FES . 
K 7 F3S B 1 302 245 F3S F3S . 
L 8 SF4 B 1 303 246 SF4 SF4 . 
M 5 FAD E 1 601 703 FAD FAD . 
N 6 FES F 1 301 244 FES FES . 
O 7 F3S F 1 302 245 F3S F3S . 
P 8 SF4 F 1 303 246 SF4 SF4 . 
#
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 . . . I 5 -1.89 -6.013 -3.837 1 204.07 ? PA FAD 601 A 1 
HETATM 2 O O1A FAD . . . I 5 -1.286 -4.761 -4.361 1 209.96 ? O1A FAD 601 A 1 
HETATM 3 O O2A FAD . . . I 5 -2.517 -5.894 -2.446 1 204.95 ? O2A FAD 601 A 1 
HETATM 4 O O5B FAD . . . I 5 -0.852 -7.196 -3.832 1 190.11 ? O5B FAD 601 A 1 
HETATM 5 C C5B FAD . . . I 5 -0.121 -7.558 -5.023 1 191.98 ? C5B FAD 601 A 1 
HETATM 6 C C4B FAD . . . I 5 -0.078 -9.064 -5.119 1 196.97 ? C4B FAD 601 A 1 
HETATM 7 O O4B FAD . . . I 5 0.672 -9.456 -6.293 1 196.67 ? O4B FAD 601 A 1 
HETATM 8 C C3B FAD . . . I 5 0.577 -9.776 -3.936 1 204.28 ? C3B FAD 601 A 1 
HETATM 9 O O3B FAD . . . I 5 -0.112 -10.981 -3.627 1 208.07 ? O3B FAD 601 A 1 
HETATM 10 C C2B FAD . . . I 5 1.991 -10.058 -4.449 1 197.59 ? C2B FAD 601 A 1 
HETATM 11 O O2B FAD . . . I 5 2.567 -11.201 -3.827 1 193.84 ? O2B FAD 601 A 1 
HETATM 12 C C1B FAD . . . I 5 1.71 -10.339 -5.921 1 191.31 ? C1B FAD 601 A 1 
HETATM 13 N N9A FAD . . . I 5 2.847 -10.122 -6.81 1 186.37 ? N9A FAD 601 A 1 
HETATM 14 C C8A FAD . . . I 5 3.359 -8.923 -7.229 1 186.74 ? C8A FAD 601 A 1 
HETATM 15 N N7A FAD . . . I 5 4.389 -9.033 -8.034 1 185.72 ? N7A FAD 601 A 1 
HETATM 16 C C5A FAD . . . I 5 4.565 -10.403 -8.155 1 185.86 ? C5A FAD 601 A 1 
HETATM 17 C C6A FAD . . . I 5 5.493 -11.182 -8.872 1 190.2 ? C6A FAD 601 A 1 
HETATM 18 N N6A FAD . . . I 5 6.461 -10.668 -9.634 1 191.81 ? N6A FAD 601 A 1 
HETATM 19 N N1A FAD . . . I 5 5.39 -12.526 -8.777 1 193.16 ? N1A FAD 601 A 1 
HETATM 20 C C2A FAD . . . I 5 4.424 -13.045 -8.017 1 197.67 ? C2A FAD 601 A 1 
HETATM 21 N N3A FAD . . . I 5 3.495 -12.413 -7.297 1 193.61 ? N3A FAD 601 A 1 
HETATM 22 C C4A FAD . . . I 5 3.62 -11.086 -7.409 1 187.24 ? C4A FAD 601 A 1 
HETATM 23 N N1 FAD . . . I 5 -8.53 1.265 -1.559 1 299.12 ? N1 FAD 601 A 1 
HETATM 24 C C2 FAD . . . I 5 -9.86 1.303 -1.257 1 299.93 ? C2 FAD 601 A 1 
HETATM 25 O O2 FAD . . . I 5 -10.725 1.003 -2.088 1 298.96 ? O2 FAD 601 A 1 
HETATM 26 N N3 FAD . . . I 5 -10.262 1.691 0.007 1 299.05 ? N3 FAD 601 A 1 
HETATM 27 C C4 FAD . . . I 5 -9.436 2.059 1.045 1 293.49 ? C4 FAD 601 A 1 
HETATM 28 O O4 FAD . . . I 5 -9.915 2.387 2.127 1 288.34 ? O4 FAD 601 A 1 
HETATM 29 C C4X FAD . . . I 5 -8.024 2.01 0.72 1 292.1 ? C4X FAD 601 A 1 
HETATM 30 N N5 FAD . . . I 5 -7.17 2.341 1.648 1 287.23 ? N5 FAD 601 A 1 
HETATM 31 C C5X FAD . . . I 5 -5.818 2.296 1.339 1 286.29 ? C5X FAD 601 A 1 
HETATM 32 C C6 FAD . . . I 5 -4.893 2.648 2.321 1 282.24 ? C6 FAD 601 A 1 
HETATM 33 C C7 FAD . . . I 5 -3.527 2.618 2.062 1 282.76 ? C7 FAD 601 A 1 
HETATM 34 C C7M FAD . . . I 5 -2.553 3.003 3.144 1 279.65 ? C7M FAD 601 A 1 
HETATM 35 C C8 FAD . . . I 5 -3.07 2.227 0.794 1 284.76 ? C8 FAD 601 A 1 
HETATM 36 C C8M FAD . . . I 5 -1.597 2.193 0.485 1 282.92 ? C8M FAD 601 A 1 
HETATM 37 C C9 FAD . . . I 5 -3.99 1.877 -0.19 1 287.94 ? C9 FAD 601 A 1 
HETATM 38 C C9A FAD . . . I 5 -5.355 1.908 0.073 1 288.57 ? C9A FAD 601 A 1 
HETATM 39 N N10 FAD . . . I 5 -6.31 1.553 -0.902 1 286.16 ? N10 FAD 601 A 1 
HETATM 40 C C10 FAD . . . I 5 -7.663 1.599 -0.611 1 294.31 ? C10 FAD 601 A 1 
HETATM 41 C C1' FAD . . . I 5 -5.884 1.137 -2.253 1 268.31 ? C1' FAD 601 A 1 
HETATM 42 C C2' FAD . . . I 5 -6.209 -0.322 -2.567 1 250.61 ? C2' FAD 601 A 1 
HETATM 43 O O2' FAD . . . I 5 -6.596 -1.017 -1.382 1 249.2 ? O2' FAD 601 A 1 
HETATM 44 C C3' FAD . . . I 5 -4.982 -1.01 -3.167 1 243.15 ? C3' FAD 601 A 1 
HETATM 45 O O3' FAD . . . I 5 -4.889 -0.675 -4.546 1 245.55 ? O3' FAD 601 A 1 
HETATM 46 C C4' FAD . . . I 5 -5.058 -2.532 -3.045 1 243.52 ? C4' FAD 601 A 1 
HETATM 47 O O4' FAD . . . I 5 -4.238 -2.968 -1.961 1 244.86 ? O4' FAD 601 A 1 
HETATM 48 C C5' FAD . . . I 5 -4.676 -3.258 -4.318 1 242.94 ? C5' FAD 601 A 1 
HETATM 49 O O5' FAD . . . I 5 -4.387 -4.636 -4.002 1 238.33 ? O5' FAD 601 A 1 
HETATM 50 P P FAD . . . I 5 -4.363 -5.744 -5.12 1 229.28 ? P FAD 601 A 1 
HETATM 51 O O1P FAD . . . I 5 -5.525 -6.721 -4.911 1 221.32 ? O1P FAD 601 A 1 
HETATM 52 O O2P FAD . . . I 5 -4.3 -5.106 -6.465 1 237.78 ? O2P FAD 601 A 1 
HETATM 53 O O3P FAD . . . I 5 -3.015 -6.527 -4.827 1 217.5 ? O3P FAD 601 A 1 
#
_model_server_stats.io_time_ms              116 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    22 
_model_server_stats.query_time_ms           309 
_model_server_stats.encode_time_ms          19 
_model_server_stats.element_count           53 
#