data_2DLD
#
_model_server_result.job_id            d3A2V72ElxHumVfDhctArA 
_model_server_result.datetime_utc      '2024-12-02 19:57:31' 
_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          2dld 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":401}' 
#
_entry.id    2DLD 
#
_exptl.entry_id    2DLD 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              665.441 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '1,4-DIHYDRONICOTINAMIDE 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          113.2 
_cell.angle_gamma         90 
_cell.entry_id            2DLD 
_cell.length_a            86.2 
_cell.length_b            62.1 
_cell.length_c            77.4 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2DLD 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_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 
_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
? 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 OD1 ASP 176 A ASP 176 1_555 C N3A NAI . A NAI 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.916 ? 
covale ? covale2 E C5N NAI . B NAI 401 1_555 F N1 OXM . B OXM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.95 ? 
#
_chem_comp.formula           'C21 H29 N7 O14 P2' 
_chem_comp.formula_weight    665.441 
_chem_comp.id                NAI 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     NADH 
#
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 NAI doub 235 n n 
PA O2A NAI sing 236 n n 
PA O5B NAI sing 237 n n 
PA O3 NAI sing 238 n n 
O2A HOA2 NAI sing 239 n n 
O5B C5B NAI sing 240 n n 
C5B C4B NAI sing 241 n n 
C5B H51A NAI sing 242 n n 
C5B H52A NAI sing 243 n n 
C4B O4B NAI sing 244 n n 
C4B C3B NAI sing 245 n n 
C4B H4B NAI sing 246 n n 
O4B C1B NAI sing 247 n n 
C3B O3B NAI sing 248 n n 
C3B C2B NAI sing 249 n n 
C3B H3B NAI sing 250 n n 
O3B HO3A NAI sing 251 n n 
C2B O2B NAI sing 252 n n 
C2B C1B NAI sing 253 n n 
C2B H2B NAI sing 254 n n 
O2B HO2A NAI sing 255 n n 
C1B N9A NAI sing 256 n n 
C1B H1B NAI sing 257 n n 
N9A C8A NAI sing 258 n y 
N9A C4A NAI sing 259 n y 
C8A N7A NAI doub 260 n y 
C8A H8A NAI sing 261 n n 
N7A C5A NAI sing 262 n y 
C5A C6A NAI sing 263 n y 
C5A C4A NAI doub 264 n y 
C6A N6A NAI sing 265 n n 
C6A N1A NAI doub 266 n y 
N6A H61A NAI sing 267 n n 
N6A H62A NAI sing 268 n n 
N1A C2A NAI sing 269 n y 
C2A N3A NAI doub 270 n y 
C2A H2A NAI sing 271 n n 
N3A C4A NAI sing 272 n y 
O3 PN NAI sing 273 n n 
PN O1N NAI sing 274 n n 
PN O2N NAI doub 275 n n 
PN O5D NAI sing 276 n n 
O1N HO1N NAI sing 277 n n 
O5D C5D NAI sing 278 n n 
C5D C4D NAI sing 279 n n 
C5D H51N NAI sing 280 n n 
C5D H52N NAI sing 281 n n 
C4D O4D NAI sing 282 n n 
C4D C3D NAI sing 283 n n 
C4D H4D NAI sing 284 n n 
O4D C1D NAI sing 285 n n 
C3D O3D NAI sing 286 n n 
C3D C2D NAI sing 287 n n 
C3D H3D NAI sing 288 n n 
O3D HO3N NAI sing 289 n n 
C2D O2D NAI sing 290 n n 
C2D C1D NAI sing 291 n n 
C2D H2D NAI sing 292 n n 
O2D HO2N NAI sing 293 n n 
C1D N1N NAI sing 294 n n 
C1D H1D NAI sing 295 n n 
N1N C2N NAI sing 296 n n 
N1N C6N NAI sing 297 n n 
C2N C3N NAI doub 298 n n 
C2N H2N NAI sing 299 n n 
C3N C7N NAI sing 300 n n 
C3N C4N NAI sing 301 n n 
C7N O7N NAI doub 302 n n 
C7N N7N NAI sing 303 n n 
N7N H71N NAI sing 304 n n 
N7N H72N NAI sing 305 n n 
C4N C5N NAI sing 306 n n 
C4N H4N NAI sing 307 n n 
C4N H42N NAI sing 308 n n 
C5N C6N NAI doub 309 n n 
C5N H5N NAI sing 310 n n 
C6N H6N NAI sing 311 n n 
#
_atom_sites.entry_id                     2DLD 
_atom_sites.fract_transf_matrix[1][1]    0.011601 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.004972 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.016103 
_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]    0.014057 
_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 NAI A 1 401 401 NAI NAD . 
D 3 OXM A 1 402 402 OXM OXM . 
E 2 NAI B 1 401 401 NAI NAD . 
F 3 OXM B 1 402 402 OXM OXM . 
#
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 NAI . . . C 2 9.89 45.175 17.169 1 76.16 ? PA NAI 401 A 1 
HETATM 2 O O1A NAI . . . C 2 8.758 45.881 16.47 1 74.6 ? O1A NAI 401 A 1 
HETATM 3 O O2A NAI . . . C 2 10.689 45.994 18.199 1 75.91 ? O2A NAI 401 A 1 
HETATM 4 O O5B NAI . . . C 2 10.873 44.506 16.11 1 75.1 ? O5B NAI 401 A 1 
HETATM 5 C C5B NAI . . . C 2 12.186 45.048 15.728 1 73.74 ? C5B NAI 401 A 1 
HETATM 6 C C4B NAI . . . C 2 12.081 46.294 14.985 1 73.58 ? C4B NAI 401 A 1 
HETATM 7 O O4B NAI . . . C 2 10.905 46.233 14.038 1 73.39 ? O4B NAI 401 A 1 
HETATM 8 C C3B NAI . . . C 2 11.853 47.667 15.704 1 73.93 ? C3B NAI 401 A 1 
HETATM 9 O O3B NAI . . . C 2 13.117 48.204 16.216 1 71.81 ? O3B NAI 401 A 1 
HETATM 10 C C2B NAI . . . C 2 10.987 48.497 14.828 1 74.61 ? C2B NAI 401 A 1 
HETATM 11 O O2B NAI . . . C 2 11.101 49.773 14.549 1 75.77 ? O2B NAI 401 A 1 
HETATM 12 C C1B NAI . . . C 2 10.354 47.504 13.974 1 74.54 ? C1B NAI 401 A 1 
HETATM 13 N N9A NAI . . . C 2 9.425 47.646 12.943 1 74.93 ? N9A NAI 401 A 1 
HETATM 14 C C8A NAI . . . C 2 8.066 47.978 12.91 1 74.56 ? C8A NAI 401 A 1 
HETATM 15 N N7A NAI . . . C 2 7.466 47.931 11.739 1 73.3 ? N7A NAI 401 A 1 
HETATM 16 C C5A NAI . . . C 2 8.403 47.57 10.865 1 74.5 ? C5A NAI 401 A 1 
HETATM 17 C C6A NAI . . . C 2 8.323 47.376 9.408 1 75.12 ? C6A NAI 401 A 1 
HETATM 18 N N6A NAI . . . C 2 7.255 47.538 8.654 1 75.81 ? N6A NAI 401 A 1 
HETATM 19 N N1A NAI . . . C 2 9.527 46.979 8.879 1 75.57 ? N1A NAI 401 A 1 
HETATM 20 C C2A NAI . . . C 2 10.676 46.769 9.535 1 74.96 ? C2A NAI 401 A 1 
HETATM 21 N N3A NAI . . . C 2 10.8 46.965 10.904 1 74.61 ? N3A NAI 401 A 1 
HETATM 22 C C4A NAI . . . C 2 9.626 47.367 11.545 1 74.91 ? C4A NAI 401 A 1 
HETATM 23 O O3 NAI . . . C 2 9.322 43.893 17.867 1 74.91 ? O3 NAI 401 A 1 
HETATM 24 P PN NAI . . . C 2 9.783 42.94 19.161 1 73.55 ? PN NAI 401 A 1 
HETATM 25 O O1N NAI . . . C 2 9.276 43.617 20.38 1 73.09 ? O1N NAI 401 A 1 
HETATM 26 O O2N NAI . . . C 2 11.236 42.667 19.08 1 72.49 ? O2N NAI 401 A 1 
HETATM 27 O O5D NAI . . . C 2 8.987 41.629 18.904 1 71.69 ? O5D NAI 401 A 1 
HETATM 28 C C5D NAI . . . C 2 9.178 40.42 18.188 1 69.27 ? C5D NAI 401 A 1 
HETATM 29 C C4D NAI . . . C 2 7.983 40.037 17.428 1 68.13 ? C4D NAI 401 A 1 
HETATM 30 O O4D NAI . . . C 2 7.262 38.945 18.171 1 64.99 ? O4D NAI 401 A 1 
HETATM 31 C C3D NAI . . . C 2 6.842 41.124 17.312 1 68.49 ? C3D NAI 401 A 1 
HETATM 32 O O3D NAI . . . C 2 7.133 41.77 16.105 1 70.76 ? O3D NAI 401 A 1 
HETATM 33 C C2D NAI . . . C 2 5.492 40.474 17.471 1 66.52 ? C2D NAI 401 A 1 
HETATM 34 O O2D NAI . . . C 2 4.608 40.599 16.435 1 66.17 ? O2D NAI 401 A 1 
HETATM 35 C C1D NAI . . . C 2 5.821 39.064 17.928 1 64.5 ? C1D NAI 401 A 1 
HETATM 36 N N1N NAI . . . C 2 5.114 38.435 19.158 1 63.22 ? N1N NAI 401 A 1 
HETATM 37 C C2N NAI . . . C 2 4.762 37.094 18.958 1 61.72 ? C2N NAI 401 A 1 
HETATM 38 C C3N NAI . . . C 2 4.232 36.506 20.071 1 60.11 ? C3N NAI 401 A 1 
HETATM 39 C C7N NAI . . . C 2 3.917 34.988 19.784 1 57.89 ? C7N NAI 401 A 1 
HETATM 40 O O7N NAI . . . C 2 3.781 34.248 20.766 1 55.26 ? O7N NAI 401 A 1 
HETATM 41 N N7N NAI . . . C 2 3.943 34.588 18.499 1 55.97 ? N7N NAI 401 A 1 
HETATM 42 C C4N NAI . . . C 2 4.066 37.07 21.352 1 61.81 ? C4N NAI 401 A 1 
HETATM 43 C C5N NAI . . . C 2 4.463 38.436 21.414 1 62.18 ? C5N NAI 401 A 1 
HETATM 44 C C6N NAI . . . C 2 4.99 39.094 20.326 1 62.91 ? C6N NAI 401 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    35 
_model_server_stats.query_time_ms           316 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           44 
#