data_4QVB
#
_model_server_result.job_id            St5Uh1o-zYCqo4Fe2fNUbw 
_model_server_result.datetime_utc      '2024-10-10 17:14:52' 
_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          4qvb 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":201}' 
#
_entry.id    4QVB 
#
_exptl.entry_id    4QVB 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              773.593 
_entity.id                          6 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'COENZYME F420' 
_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            4QVB 
_cell.length_a            53.579 
_cell.length_b            65.172 
_cell.length_c            77.063 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4QVB 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_and_software_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,O,P,Q,R,S,T,U 
_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
? 6 M N N 
? 6 N N N 
#
_struct_conn.conn_type_id                   metalc 
_struct_conn.details                        ? 
_struct_conn.id                             metalc1 
_struct_conn.ptnr1_label_asym_id            N 
_struct_conn.ptnr1_label_atom_id            O2P 
_struct_conn.ptnr1_label_comp_id            F42 
_struct_conn.ptnr1_label_seq_id             . 
_struct_conn.ptnr1_auth_asym_id             B 
_struct_conn.ptnr1_auth_comp_id             F42 
_struct_conn.ptnr1_auth_seq_id              202 
_struct_conn.ptnr1_symmetry                 1_555 
_struct_conn.ptnr2_label_asym_id            S 
_struct_conn.ptnr2_label_atom_id            NA 
_struct_conn.ptnr2_label_comp_id            NA 
_struct_conn.ptnr2_label_seq_id             . 
_struct_conn.ptnr2_auth_asym_id             B 
_struct_conn.ptnr2_auth_comp_id             NA 
_struct_conn.ptnr2_auth_seq_id              207 
_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                2.243 
_struct_conn.pdbx_value_order               ? 
#
_chem_comp.formula           'C29 H36 N5 O18 P' 
_chem_comp.formula_weight    773.593 
_chem_comp.id                F42 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'COENZYME F420' 
_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
N1 C2 F42 sing 79 n y 
N1 C10 F42 doub 80 n y 
C2 O2 F42 doub 81 n n 
C2 N3 F42 sing 82 n y 
N3 C4 F42 sing 83 n y 
N3 HN3 F42 sing 84 n n 
C4 O4 F42 doub 85 n n 
C4 C4A F42 sing 86 n y 
C4A C5 F42 doub 87 n y 
C4A C10 F42 sing 88 n y 
C5 C5A F42 sing 89 n y 
C5 H5 F42 sing 90 n n 
C5A C6 F42 doub 91 n y 
C5A C9A F42 sing 92 n y 
C6 C7 F42 sing 93 n y 
C6 H6 F42 sing 94 n n 
C7 C8 F42 doub 95 n y 
C7 HC7 F42 sing 96 n n 
C8 O8M F42 sing 97 n n 
C8 C9 F42 sing 98 n y 
O8M HM81 F42 sing 99 n n 
C9 C9A F42 doub 100 n y 
C9 H9 F42 sing 101 n n 
C9A N10 F42 sing 102 n y 
N10 C10 F42 sing 103 n y 
N10 C1' F42 sing 104 n n 
C1' C2' F42 sing 105 n n 
C1' "H1'1" F42 sing 106 n n 
C1' "H1'2" F42 sing 107 n n 
C2' O2' F42 sing 108 n n 
C2' C3' F42 sing 109 n n 
C2' H2' F42 sing 110 n n 
O2' HO2' F42 sing 111 n n 
C3' O3' F42 sing 112 n n 
C3' C4' F42 sing 113 n n 
C3' H3' F42 sing 114 n n 
O3' HO3' F42 sing 115 n n 
C4' O4' F42 sing 116 n n 
C4' C5' F42 sing 117 n n 
C4' H4' F42 sing 118 n n 
O4' HO4' F42 sing 119 n n 
C5' O5' F42 sing 120 n n 
C5' "H5'1" F42 sing 121 n n 
C5' "H5'2" F42 sing 122 n n 
O5' P F42 sing 123 n n 
P O1P F42 doub 124 n n 
P O2P F42 sing 125 n n 
P O3P F42 sing 126 n n 
O2P HOP2 F42 sing 127 n n 
O3P C1I F42 sing 128 n n 
C1I C2I F42 sing 129 n n 
C1I C3I F42 sing 130 n n 
C1I H1I1 F42 sing 131 n n 
C2I H2I1 F42 sing 132 n n 
C2I H2I2 F42 sing 133 n n 
C2I H2I3 F42 sing 134 n n 
C3I O3I F42 doub 135 n n 
C3I N1H F42 sing 136 n n 
N1H C1H F42 sing 137 n n 
N1H HNH1 F42 sing 138 n n 
C1H C2H F42 sing 139 n n 
C1H C3H F42 sing 140 n n 
C1H H1H1 F42 sing 141 n n 
C2H O2U F42 sing 142 n n 
C2H O2T F42 doub 143 n n 
O2U HXU F42 sing 144 n n 
C3H C4H F42 sing 145 n n 
C3H H3H1 F42 sing 146 n n 
C3H H3H2 F42 sing 147 n n 
C4H C5H F42 sing 148 n n 
C4H H4H1 F42 sing 149 n n 
C4H H4H2 F42 sing 150 n n 
C5H O5H F42 doub 151 n n 
C5H N1G F42 sing 152 n n 
N1G C1G F42 sing 153 n n 
N1G HNG1 F42 sing 154 n n 
C1G C2G F42 sing 155 n n 
C1G C3G F42 sing 156 n n 
C1G H1G1 F42 sing 157 n n 
C2G O2V F42 sing 158 n n 
C2G O2W F42 doub 159 n n 
O2V HXV F42 sing 160 n n 
C3G C4G F42 sing 161 n n 
C3G H3G1 F42 sing 162 n n 
C3G H3G2 F42 sing 163 n n 
C4G C5G F42 sing 164 n n 
C4G H4G1 F42 sing 165 n n 
C4G H4G2 F42 sing 166 n n 
C5G O6G F42 sing 167 n n 
C5G O7G F42 doub 168 n n 
O6G HXT F42 sing 169 n n 
#
_atom_sites.entry_id                     4QVB 
_atom_sites.fract_transf_matrix[1][1]    0.018664 
_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]    0.015344 
_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]    0.012976 
_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 FMT A 1 301 301 FMT FMT . 
D 2 FMT A 1 302 302 FMT FMT . 
E 2 FMT A 1 303 303 FMT FMT . 
F 3 PDO A 1 304 315 PDO PDO . 
G 3 PDO A 1 305 316 PDO PDO . 
H 4 EDO A 1 306 317 EDO EDO . 
I 4 EDO A 1 307 318 EDO EDO . 
J 4 EDO A 1 308 319 EDO EDO . 
K 4 EDO A 1 309 320 EDO EDO . 
L 5 PGO A 1 310 321 PGO PGO . 
M 6 F42 B 1 201 201 F42 F42 . 
N 6 F42 B 1 202 202 F42 F42 . 
O 2 FMT B 1 203 304 FMT FMT . 
P 2 FMT B 1 204 305 FMT FMT . 
Q 3 PDO B 1 205 313 PDO PDO . 
R 3 PDO B 1 206 314 PDO PDO . 
S 7 NA B 1 207 322 NA NA . 
T 8 HOH A 1 401 1 HOH HOH . 
T 8 HOH A 2 402 2 HOH HOH . 
T 8 HOH A 3 403 3 HOH HOH . 
T 8 HOH A 4 404 4 HOH HOH . 
T 8 HOH A 5 405 5 HOH HOH . 
T 8 HOH A 6 406 6 HOH HOH . 
T 8 HOH A 7 407 7 HOH HOH . 
T 8 HOH A 8 408 8 HOH HOH . 
T 8 HOH A 9 409 9 HOH HOH . 
T 8 HOH A 10 410 11 HOH HOH . 
T 8 HOH A 11 411 12 HOH HOH . 
T 8 HOH A 12 412 13 HOH HOH . 
T 8 HOH A 13 413 14 HOH HOH . 
T 8 HOH A 14 414 17 HOH HOH . 
T 8 HOH A 15 415 29 HOH HOH . 
T 8 HOH A 16 416 31 HOH HOH . 
T 8 HOH A 17 417 33 HOH HOH . 
T 8 HOH A 18 418 37 HOH HOH . 
T 8 HOH A 19 419 40 HOH HOH . 
T 8 HOH A 20 420 41 HOH HOH . 
T 8 HOH A 21 421 51 HOH HOH . 
T 8 HOH A 22 422 52 HOH HOH . 
T 8 HOH A 23 423 53 HOH HOH . 
T 8 HOH A 24 424 54 HOH HOH . 
T 8 HOH A 25 425 55 HOH HOH . 
T 8 HOH A 26 426 56 HOH HOH . 
T 8 HOH A 27 427 58 HOH HOH . 
U 8 HOH B 1 301 10 HOH HOH . 
U 8 HOH B 2 302 15 HOH HOH . 
U 8 HOH B 3 303 16 HOH HOH . 
U 8 HOH B 4 304 18 HOH HOH . 
U 8 HOH B 5 305 19 HOH HOH . 
U 8 HOH B 6 306 20 HOH HOH . 
U 8 HOH B 7 307 21 HOH HOH . 
U 8 HOH B 8 308 22 HOH HOH . 
U 8 HOH B 9 309 23 HOH HOH . 
U 8 HOH B 10 310 24 HOH HOH . 
U 8 HOH B 11 311 25 HOH HOH . 
U 8 HOH B 12 312 26 HOH HOH . 
U 8 HOH B 13 313 27 HOH HOH . 
U 8 HOH B 14 314 28 HOH HOH . 
U 8 HOH B 15 315 30 HOH HOH . 
U 8 HOH B 16 316 32 HOH HOH . 
U 8 HOH B 17 317 34 HOH HOH . 
U 8 HOH B 18 318 35 HOH HOH . 
U 8 HOH B 19 319 36 HOH HOH . 
U 8 HOH B 20 320 38 HOH HOH . 
U 8 HOH B 21 321 39 HOH HOH . 
U 8 HOH B 22 322 42 HOH HOH . 
U 8 HOH B 23 323 43 HOH HOH . 
U 8 HOH B 24 324 44 HOH HOH . 
U 8 HOH B 25 325 45 HOH HOH . 
U 8 HOH B 26 326 46 HOH HOH . 
U 8 HOH B 27 327 47 HOH HOH . 
U 8 HOH B 28 328 48 HOH HOH . 
U 8 HOH B 29 329 49 HOH HOH . 
U 8 HOH B 30 330 50 HOH HOH . 
U 8 HOH B 31 331 57 HOH HOH . 
U 8 HOH B 32 332 59 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 N N1 F42 . . . M 6 10.03 18.534 16.503 1 44.65 ? N1 F42 201 B 1 
HETATM 2 C C2 F42 . . . M 6 10.992 17.79 17.063 1 41.12 ? C2 F42 201 B 1 
HETATM 3 O O2 F42 . . . M 6 10.87 17.416 18.417 1 49.52 ? O2 F42 201 B 1 
HETATM 4 N N3 F42 . . . M 6 12.054 17.405 16.327 1 40.49 ? N3 F42 201 B 1 
HETATM 5 C C4 F42 . . . M 6 12.205 17.8 15.035 1 38.87 ? C4 F42 201 B 1 
HETATM 6 O O4 F42 . . . M 6 13.334 17.409 14.293 1 31.99 ? O4 F42 201 B 1 
HETATM 7 C C4A F42 . . . M 6 11.231 18.581 14.411 1 39.14 ? C4A F42 201 B 1 
HETATM 8 C C5 F42 . . . M 6 11.087 18.743 12.928 1 42.61 ? C5 F42 201 B 1 
HETATM 9 C C5A F42 . . . M 6 9.748 18.98 12.313 1 45.77 ? C5A F42 201 B 1 
HETATM 10 C C6 F42 . . . M 6 9.509 18.938 10.939 1 45.69 ? C6 F42 201 B 1 
HETATM 11 C C7 F42 . . . M 6 8.215 19.186 10.476 1 51.6 ? C7 F42 201 B 1 
HETATM 12 C C8 F42 . . . M 6 7.17 19.466 11.351 1 52.07 ? C8 F42 201 B 1 
HETATM 13 O O8M F42 . . . M 6 5.87 19.712 10.864 1 47.46 ? O8M F42 201 B 1 
HETATM 14 C C9 F42 . . . M 6 7.4 19.512 12.708 1 43.74 ? C9 F42 201 B 1 
HETATM 15 C C9A F42 . . . M 6 8.682 19.264 13.159 1 49.62 ? C9A F42 201 B 1 
HETATM 16 N N10 F42 . . . M 6 8.88 19.317 14.582 1 55.45 ? N10 F42 201 B 1 
HETATM 17 C C10 F42 . . . M 6 10.085 18.799 15.188 1 48.51 ? C10 F42 201 B 1 
HETATM 18 C C1' F42 . . . M 6 7.788 19.759 15.398 1 47.1 ? C1' F42 201 B 1 
HETATM 19 C C2' F42 . . . M 6 7.339 18.55 16.22 1 56.48 ? C2' F42 201 B 1 
HETATM 20 O O2' F42 . . . M 6 6.365 17.807 15.483 1 47.29 ? O2' F42 201 B 1 
HETATM 21 C C3' F42 . . . M 6 6.725 19.028 17.538 1 59.22 ? C3' F42 201 B 1 
HETATM 22 O O3' F42 . . . M 6 7.362 18.36 18.629 1 58.87 ? O3' F42 201 B 1 
HETATM 23 C C4' F42 . . . M 6 5.228 18.711 17.549 1 51.48 ? C4' F42 201 B 1 
HETATM 24 O O4' F42 . . . M 6 4.578 19.447 16.51 1 51.89 ? O4' F42 201 B 1 
HETATM 25 C C5' F42 . . . M 6 4.633 19.104 18.902 1 56.21 ? C5' F42 201 B 1 
HETATM 26 O O5' F42 . . . M 6 5.138 17.104 19.479 1 54.19 ? O5' F42 201 B 1 
HETATM 27 P P F42 . . . M 6 4.27 16.394 20.247 1 58.14 ? P F42 201 B 1 
HETATM 28 O O1P F42 . . . M 6 5.022 15.091 20.412 1 37.11 ? O1P F42 201 B 1 
HETATM 29 O O2P F42 . . . M 6 3.949 17.045 21.593 1 46.39 ? O2P F42 201 B 1 
HETATM 30 O O3P F42 . . . M 6 2.929 16.16 19.411 1 54.75 ? O3P F42 201 B 1 
HETATM 31 C C1I F42 . . . M 6 1.673 16.661 19.859 1 49.92 ? C1I F42 201 B 1 
HETATM 32 C C2I F42 . . . M 6 1.22 17.783 18.945 1 50.69 ? C2I F42 201 B 1 
HETATM 33 C C3I F42 . . . M 6 0.728 15.477 19.82 1 35.83 ? C3I F42 201 B 1 
HETATM 34 O O3I F42 . . . M 6 1.093 14.504 19.217 1 37.2 ? O3I F42 201 B 1 
HETATM 35 N N1H F42 . . . M 6 -0.529 15.478 20.477 1 37.44 ? N1H F42 201 B 1 
HETATM 36 C C1H F42 . . . M 6 -1.376 14.341 20.432 1 38.19 ? C1H F42 201 B 1 
HETATM 37 C C2H F42 . . . M 6 -2.776 14.768 20.8 1 41.11 ? C2H F42 201 B 1 
HETATM 38 O O2U F42 . . . M 6 -3.712 13.925 20.778 1 46.59 ? O2U F42 201 B 1 
HETATM 39 O O2T F42 . . . M 6 -2.998 15.977 21.099 1 45.6 ? O2T F42 201 B 1 
HETATM 40 C C3H F42 . . . M 6 -0.839 13.067 21.108 1 35.93 ? C3H F42 201 B 1 
HETATM 41 C C4H F42 . . . M 6 -0.543 13.19 22.594 1 40.49 ? C4H F42 201 B 1 
HETATM 42 C C5H F42 . . . M 6 0.168 12.014 23.268 1 45.36 ? C5H F42 201 B 1 
HETATM 43 O O5H F42 . . . M 6 0.801 11.204 22.618 1 42.84 ? O5H F42 201 B 1 
HETATM 44 N N1G F42 . . . M 6 0.125 11.861 24.686 1 46.42 ? N1G F42 201 B 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    17 
_model_server_stats.query_time_ms           270 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           44 
#