data_5VPN
#
_model_server_result.job_id            O9apzhtVsEuqhTQOAbWmvA 
_model_server_result.datetime_utc      '2024-11-04 22:41:02' 
_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":"M","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 . . . M 5 -3.204 -67.506 -10.951 1 202.56 ? PA FAD 601 E 1 
HETATM 2 O O1A FAD . . . M 5 -3.89 -68.552 -11.747 1 203.44 ? O1A FAD 601 E 1 
HETATM 3 O O2A FAD . . . M 5 -2.582 -67.947 -9.624 1 210.99 ? O2A FAD 601 E 1 
HETATM 4 O O5B FAD . . . M 5 -4.203 -66.316 -10.715 1 205.1 ? O5B FAD 601 E 1 
HETATM 5 C C5B FAD . . . M 5 -4.806 -65.613 -11.821 1 212.34 ? C5B FAD 601 E 1 
HETATM 6 C C4B FAD . . . M 5 -5.185 -64.225 -11.361 1 224.9 ? C4B FAD 601 E 1 
HETATM 7 O O4B FAD . . . M 5 -5.832 -63.512 -12.439 1 226.78 ? O4B FAD 601 E 1 
HETATM 8 C C3B FAD . . . M 5 -6.136 -64.164 -10.163 1 231.83 ? C3B FAD 601 E 1 
HETATM 9 O O3B FAD . . . M 5 -5.697 -63.202 -9.211 1 234.9 ? O3B FAD 601 E 1 
HETATM 10 C C2B FAD . . . M 5 -7.466 -63.73 -10.786 1 230.85 ? C2B FAD 601 E 1 
HETATM 11 O O2B FAD . . . M 5 -8.239 -62.951 -9.881 1 233.39 ? O2B FAD 601 E 1 
HETATM 12 C C1B FAD . . . M 5 -6.975 -62.861 -11.937 1 222.99 ? C1B FAD 601 E 1 
HETATM 13 N N9A FAD . . . M 5 -7.936 -62.702 -13.022 1 213.41 ? N9A FAD 601 E 1 
HETATM 14 C C8A FAD . . . M 5 -8.461 -63.687 -13.817 1 212.65 ? C8A FAD 601 E 1 
HETATM 15 N N7A FAD . . . M 5 -9.309 -63.253 -14.718 1 213.15 ? N7A FAD 601 E 1 
HETATM 16 C C5A FAD . . . M 5 -9.347 -61.884 -14.498 1 208.69 ? C5A FAD 601 E 1 
HETATM 17 C C6A FAD . . . M 5 -10.059 -60.842 -15.123 1 195.46 ? C6A FAD 601 E 1 
HETATM 18 N N6A FAD . . . M 5 -10.907 -61.027 -16.139 1 192.17 ? N6A FAD 601 E 1 
HETATM 19 N N1A FAD . . . M 5 -9.868 -59.587 -14.661 1 195.33 ? N1A FAD 601 E 1 
HETATM 20 C C2A FAD . . . M 5 -9.021 -59.397 -13.646 1 197.71 ? C2A FAD 601 E 1 
HETATM 21 N N3A FAD . . . M 5 -8.296 -60.298 -12.981 1 201.61 ? N3A FAD 601 E 1 
HETATM 22 C C4A FAD . . . M 5 -8.506 -61.531 -13.457 1 208.2 ? C4A FAD 601 E 1 
HETATM 23 N N1 FAD . . . M 5 2.839 -75.582 -10.142 1 291.01 ? N1 FAD 601 E 1 
HETATM 24 C C2 FAD . . . M 5 4.137 -75.851 -9.813 1 290.61 ? C2 FAD 601 E 1 
HETATM 25 O O2 FAD . . . M 5 5.085 -75.342 -10.414 1 287.68 ? O2 FAD 601 E 1 
HETATM 26 N N3 FAD . . . M 5 4.42 -76.715 -8.777 1 294.63 ? N3 FAD 601 E 1 
HETATM 27 C C4 FAD . . . M 5 3.509 -77.373 -8 1 296.78 ? C4 FAD 601 E 1 
HETATM 28 O O4 FAD . . . M 5 3.894 -78.122 -7.104 1 295.17 ? O4 FAD 601 E 1 
HETATM 29 C C4X FAD . . . M 5 2.128 -77.089 -8.348 1 297.55 ? C4X FAD 601 E 1 
HETATM 30 N N5 FAD . . . M 5 1.191 -77.672 -7.658 1 298.84 ? N5 FAD 601 E 1 
HETATM 31 C C5X FAD . . . M 5 -0.126 -77.401 -7.991 1 295.87 ? C5X FAD 601 E 1 
HETATM 32 C C6 FAD . . . M 5 -1.143 -78.016 -7.264 1 292.99 ? C6 FAD 601 E 1 
HETATM 33 C C7 FAD . . . M 5 -2.483 -77.777 -7.559 1 288.68 ? C7 FAD 601 E 1 
HETATM 34 C C7M FAD . . . M 5 -3.56 -78.45 -6.75 1 286.38 ? C7M FAD 601 E 1 
HETATM 35 C C8 FAD . . . M 5 -2.814 -76.9 -8.6 1 284.46 ? C8 FAD 601 E 1 
HETATM 36 C C8M FAD . . . M 5 -4.25 -76.629 -8.946 1 278.5 ? C8M FAD 601 E 1 
HETATM 37 C C9 FAD . . . M 5 -1.803 -76.295 -9.336 1 288.81 ? C9 FAD 601 E 1 
HETATM 38 C C9A FAD . . . M 5 -0.468 -76.529 -9.034 1 291.31 ? C9A FAD 601 E 1 
HETATM 39 N N10 FAD . . . M 5 0.578 -75.916 -9.753 1 286.69 ? N10 FAD 601 E 1 
HETATM 40 C C10 FAD . . . M 5 1.891 -76.177 -9.438 1 292.27 ? C10 FAD 601 E 1 
HETATM 41 C C1' FAD . . . M 5 0.288 -74.989 -10.864 1 276.82 ? C1' FAD 601 E 1 
HETATM 42 C C2' FAD . . . M 5 -0.064 -73.576 -10.399 1 265.65 ? C2' FAD 601 E 1 
HETATM 43 O O2' FAD . . . M 5 -1.37 -73.534 -9.822 1 260.54 ? O2' FAD 601 E 1 
HETATM 44 C C3' FAD . . . M 5 -0.056 -72.629 -11.599 1 265.01 ? C3' FAD 601 E 1 
HETATM 45 O O3' FAD . . . M 5 0.944 -73.044 -12.521 1 269.05 ? O3' FAD 601 E 1 
HETATM 46 C C4' FAD . . . M 5 0.173 -71.168 -11.208 1 261.91 ? C4' FAD 601 E 1 
HETATM 47 O O4' FAD . . . M 5 -0.372 -70.943 -9.907 1 265.48 ? O4' FAD 601 E 1 
HETATM 48 C C5' FAD . . . M 5 -0.401 -70.175 -12.197 1 252.56 ? C5' FAD 601 E 1 
HETATM 49 O O5' FAD . . . M 5 -0.798 -68.982 -11.487 1 231.58 ? O5' FAD 601 E 1 
HETATM 50 P P FAD . . . M 5 -0.661 -67.551 -12.138 1 198.48 ? P FAD 601 E 1 
HETATM 51 O O1P FAD . . . M 5 0.428 -66.763 -11.403 1 188.44 ? O1P FAD 601 E 1 
HETATM 52 O O2P FAD . . . M 5 -0.48 -67.654 -13.612 1 200.05 ? O2P FAD 601 E 1 
HETATM 53 O O3P FAD . . . M 5 -2.049 -66.847 -11.813 1 195.82 ? O3P FAD 601 E 1 
#
_model_server_stats.io_time_ms              140 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    180 
_model_server_stats.query_time_ms           283 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           53 
#