data_4PFA
#
_model_server_result.job_id            BgPfo-Y3sCEVcrHZe6w7vg 
_model_server_result.datetime_utc      '2024-10-19 16:21:51' 
_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          4pfa 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":501}' 
#
_entry.id    4PFA 
#
_exptl.entry_id    4PFA 
_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          100.77 
_cell.angle_gamma         90 
_cell.entry_id            4PFA 
_cell.length_a            72.856 
_cell.length_b            82.013 
_cell.length_c            81.148 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4PFA 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
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 software_defined_assembly 1 
PISA monomeric 1 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,C,D 1 1 
B,E,F 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
? 2 C N N 
? 2 E 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
covale ? covale1 A SG CYS 406 A CYS 387 1_555 D N3 N77 . A N77 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.624 ? 
covale ? covale2 B SG CYS 406 B CYS 387 1_555 F N3 N77 . B N77 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.615 ? 
#
_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                     4PFA 
_atom_sites.fract_transf_matrix[1][1]    0.013726 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.002611 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.012193 
_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]    0.012544 
_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 1 501 501 FAD FAD . 
D 3 N77 A 1 502 550 N77 N77 . 
E 2 FAD B 1 501 501 FAD FAD . 
F 3 N77 B 1 502 550 N77 N77 . 
#
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 . . . C 2 26.421 -9.046 -1.547 1 41.92 ? PA FAD 501 A 1 
HETATM 2 O O1A FAD . . . C 2 25.594 -10.137 -2.179 1 41.65 ? O1A FAD 501 A 1 
HETATM 3 O O2A FAD . . . C 2 27.867 -8.901 -1.951 1 41.67 ? O2A FAD 501 A 1 
HETATM 4 O O5B FAD . . . C 2 25.648 -7.647 -1.766 1 42.4 ? O5B FAD 501 A 1 
HETATM 5 C C5B FAD . . . C 2 24.238 -7.569 -1.541 1 43.49 ? C5B FAD 501 A 1 
HETATM 6 C C4B FAD . . . C 2 23.726 -6.129 -1.569 1 44.49 ? C4B FAD 501 A 1 
HETATM 7 O O4B FAD . . . C 2 24.011 -5.467 -0.335 1 44.87 ? O4B FAD 501 A 1 
HETATM 8 C C3B FAD . . . C 2 24.365 -5.304 -2.672 1 45.05 ? C3B FAD 501 A 1 
HETATM 9 O O3B FAD . . . C 2 23.347 -4.502 -3.275 1 44.64 ? O3B FAD 501 A 1 
HETATM 10 C C2B FAD . . . C 2 25.372 -4.422 -1.962 1 45.65 ? C2B FAD 501 A 1 
HETATM 11 O O2B FAD . . . C 2 25.496 -3.14 -2.577 1 45.9 ? O2B FAD 501 A 1 
HETATM 12 C C1B FAD . . . C 2 24.803 -4.299 -0.563 1 46.2 ? C1B FAD 501 A 1 
HETATM 13 N N9A FAD . . . C 2 25.877 -4.193 0.452 1 47.71 ? N9A FAD 501 A 1 
HETATM 14 C C8A FAD . . . C 2 26.661 -5.192 0.896 1 48.2 ? C8A FAD 501 A 1 
HETATM 15 N N7A FAD . . . C 2 27.536 -4.749 1.832 1 48.09 ? N7A FAD 501 A 1 
HETATM 16 C C5A FAD . . . C 2 27.313 -3.436 1.996 1 48.94 ? C5A FAD 501 A 1 
HETATM 17 C C6A FAD . . . C 2 27.882 -2.351 2.831 1 49.92 ? C6A FAD 501 A 1 
HETATM 18 N N6A FAD . . . C 2 28.895 -2.606 3.696 1 50.28 ? N6A FAD 501 A 1 
HETATM 19 N N1A FAD . . . C 2 27.358 -1.107 2.696 1 50.35 ? N1A FAD 501 A 1 
HETATM 20 C C2A FAD . . . C 2 26.349 -0.843 1.84 1 49.14 ? C2A FAD 501 A 1 
HETATM 21 N N3A FAD . . . C 2 25.787 -1.781 1.055 1 48.46 ? N3A FAD 501 A 1 
HETATM 22 C C4A FAD . . . C 2 26.217 -3.07 1.086 1 48.71 ? C4A FAD 501 A 1 
HETATM 23 N N1 FAD . . . C 2 18.613 -14.271 1.843 1 42.43 ? N1 FAD 501 A 1 
HETATM 24 C C2 FAD . . . C 2 17.589 -14.284 2.735 1 42.39 ? C2 FAD 501 A 1 
HETATM 25 O O2 FAD . . . C 2 17.025 -13.209 3.017 1 43 ? O2 FAD 501 A 1 
HETATM 26 N N3 FAD . . . C 2 17.16 -15.41 3.33 1 42.65 ? N3 FAD 501 A 1 
HETATM 27 C C4 FAD . . . C 2 17.717 -16.603 3.077 1 42.69 ? C4 FAD 501 A 1 
HETATM 28 O O4 FAD . . . C 2 17.303 -17.636 3.641 1 43.97 ? O4 FAD 501 A 1 
HETATM 29 C C4X FAD . . . C 2 18.842 -16.679 2.115 1 42.42 ? C4X FAD 501 A 1 
HETATM 30 N N5 FAD . . . C 2 19.45 -17.848 1.815 1 42.72 ? N5 FAD 501 A 1 
HETATM 31 C C5X FAD . . . C 2 20.477 -17.893 0.935 1 42.53 ? C5X FAD 501 A 1 
HETATM 32 C C6 FAD . . . C 2 21.078 -19.119 0.653 1 42.94 ? C6 FAD 501 A 1 
HETATM 33 C C7 FAD . . . C 2 22.137 -19.195 -0.251 1 43.02 ? C7 FAD 501 A 1 
HETATM 34 C C7M FAD . . . C 2 22.767 -20.537 -0.534 1 43.04 ? C7M FAD 501 A 1 
HETATM 35 C C8 FAD . . . C 2 22.627 -17.95 -0.919 1 42.76 ? C8 FAD 501 A 1 
HETATM 36 C C8M FAD . . . C 2 23.769 -17.993 -1.899 1 43.04 ? C8M FAD 501 A 1 
HETATM 37 C C9 FAD . . . C 2 22.026 -16.725 -0.635 1 42.57 ? C9 FAD 501 A 1 
HETATM 38 C C9A FAD . . . C 2 20.965 -16.644 0.269 1 41.98 ? C9A FAD 501 A 1 
HETATM 39 N N10 FAD . . . C 2 20.342 -15.406 0.569 1 41.79 ? N10 FAD 501 A 1 
HETATM 40 C C10 FAD . . . C 2 19.27 -15.403 1.491 1 42.17 ? C10 FAD 501 A 1 
HETATM 41 C C1' FAD . . . C 2 20.785 -14.153 -0.065 1 41.15 ? C1' FAD 501 A 1 
HETATM 42 C C2' FAD . . . C 2 21.726 -13.357 0.841 1 41.02 ? C2' FAD 501 A 1 
HETATM 43 O O2' FAD . . . C 2 21.445 -13.629 2.219 1 41.4 ? O2' FAD 501 A 1 
HETATM 44 C C3' FAD . . . C 2 21.584 -11.853 0.626 1 41.01 ? C3' FAD 501 A 1 
HETATM 45 O O3' FAD . . . C 2 21.599 -11.531 -0.768 1 41.25 ? O3' FAD 501 A 1 
HETATM 46 C C4' FAD . . . C 2 22.69 -11.084 1.345 1 40.9 ? C4' FAD 501 A 1 
HETATM 47 O O4' FAD . . . C 2 22.267 -9.733 1.52 1 42.14 ? O4' FAD 501 A 1 
HETATM 48 C C5' FAD . . . C 2 24.002 -11.084 0.574 1 40.4 ? C5' FAD 501 A 1 
HETATM 49 O O5' FAD . . . C 2 25.07 -10.776 1.461 1 39.18 ? O5' FAD 501 A 1 
HETATM 50 P P FAD . . . C 2 26.548 -10.532 0.879 1 40.34 ? P FAD 501 A 1 
HETATM 51 O O1P FAD . . . C 2 27.444 -10.271 2.064 1 40.14 ? O1P FAD 501 A 1 
HETATM 52 O O2P FAD . . . C 2 26.896 -11.634 -0.096 1 40.69 ? O2P FAD 501 A 1 
HETATM 53 O O3P FAD . . . C 2 26.375 -9.151 0.063 1 41.43 ? O3P FAD 501 A 1 
#
_model_server_stats.io_time_ms              60 
_model_server_stats.parse_time_ms           24 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           218 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           53 
#