data_3WMX
#
_model_server_result.job_id            DOpzazGzhpWoOqHKuQlgdA 
_model_server_result.datetime_utc      '2024-12-12 17:29:18' 
_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          3wmx 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":401}' 
#
_entry.id    3WMX 
#
_exptl.entry_id    3WMX 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              663.425 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            NICOTINAMIDE-ADENINE-DINUCLEOTIDE 
_entity.pdbx_number_of_molecules    4 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          105.47 
_cell.angle_gamma         90 
_cell.entry_id            3WMX 
_cell.length_a            91.598 
_cell.length_b            88.109 
_cell.length_c            113.597 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3WMX 
_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 dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 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,C,E,F,I,K,M 1 1 
B,D,G,H,J,L,N 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 E N N 
? 2 G N N 
? 2 I N N 
? 2 J N N 
#
_chem_comp.formula           'C21 H27 N7 O14 P2' 
_chem_comp.formula_weight    663.425 
_chem_comp.id                NAD 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              NICOTINAMIDE-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 NAD doub 237 n n 
PA O2A NAD sing 238 n n 
PA O5B NAD sing 239 n n 
PA O3 NAD sing 240 n n 
O2A HOA2 NAD sing 241 n n 
O5B C5B NAD sing 242 n n 
C5B C4B NAD sing 243 n n 
C5B H51A NAD sing 244 n n 
C5B H52A NAD sing 245 n n 
C4B O4B NAD sing 246 n n 
C4B C3B NAD sing 247 n n 
C4B H4B NAD sing 248 n n 
O4B C1B NAD sing 249 n n 
C3B O3B NAD sing 250 n n 
C3B C2B NAD sing 251 n n 
C3B H3B NAD sing 252 n n 
O3B HO3A NAD sing 253 n n 
C2B O2B NAD sing 254 n n 
C2B C1B NAD sing 255 n n 
C2B H2B NAD sing 256 n n 
O2B HO2A NAD sing 257 n n 
C1B N9A NAD sing 258 n n 
C1B H1B NAD sing 259 n n 
N9A C8A NAD sing 260 n y 
N9A C4A NAD sing 261 n y 
C8A N7A NAD doub 262 n y 
C8A H8A NAD sing 263 n n 
N7A C5A NAD sing 264 n y 
C5A C6A NAD sing 265 n y 
C5A C4A NAD doub 266 n y 
C6A N6A NAD sing 267 n n 
C6A N1A NAD doub 268 n y 
N6A H61A NAD sing 269 n n 
N6A H62A NAD sing 270 n n 
N1A C2A NAD sing 271 n y 
C2A N3A NAD doub 272 n y 
C2A H2A NAD sing 273 n n 
N3A C4A NAD sing 274 n y 
O3 PN NAD sing 275 n n 
PN O1N NAD doub 276 n n 
PN O2N NAD sing 277 n n 
PN O5D NAD sing 278 n n 
O5D C5D NAD sing 279 n n 
C5D C4D NAD sing 280 n n 
C5D H51N NAD sing 281 n n 
C5D H52N NAD sing 282 n n 
C4D O4D NAD sing 283 n n 
C4D C3D NAD sing 284 n n 
C4D H4D NAD sing 285 n n 
O4D C1D NAD sing 286 n n 
C3D O3D NAD sing 287 n n 
C3D C2D NAD sing 288 n n 
C3D H3D NAD sing 289 n n 
O3D HO3N NAD sing 290 n n 
C2D O2D NAD sing 291 n n 
C2D C1D NAD sing 292 n n 
C2D H2D NAD sing 293 n n 
O2D HO2N NAD sing 294 n n 
C1D N1N NAD sing 295 n n 
C1D H1D NAD sing 296 n n 
N1N C2N NAD sing 297 n y 
N1N C6N NAD doub 298 n y 
C2N C3N NAD doub 299 n y 
C2N H2N NAD sing 300 n n 
C3N C7N NAD sing 301 n n 
C3N C4N NAD sing 302 n y 
C7N O7N NAD doub 303 n n 
C7N N7N NAD sing 304 n n 
N7N H71N NAD sing 305 n n 
N7N H72N NAD sing 306 n n 
C4N C5N NAD doub 307 n y 
C4N H4N NAD sing 308 n n 
C5N C6N NAD sing 309 n y 
C5N H5N NAD sing 310 n n 
C6N H6N NAD sing 311 n n 
#
_atom_sites.entry_id                     3WMX 
_atom_sites.fract_transf_matrix[1][1]    0.010917 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.003022 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.01135 
_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]    0.009134 
_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
E 2 NAD A 1 401 1 NAD NAD . 
F 3 THR A 1 402 1 THR THR . 
G 2 NAD B 1 401 1 NAD NAD . 
H 3 THR B 1 402 1 THR THR . 
I 2 NAD C 1 401 1 NAD NAD . 
J 2 NAD D 1 401 1 NAD NAD . 
K 4 HOH A 1 501 1 HOH HOH . 
K 4 HOH A 2 502 2 HOH HOH . 
K 4 HOH A 3 503 5 HOH HOH . 
K 4 HOH A 4 504 9 HOH HOH . 
K 4 HOH A 5 505 10 HOH HOH . 
K 4 HOH A 6 506 11 HOH HOH . 
K 4 HOH A 7 507 16 HOH HOH . 
K 4 HOH A 8 508 22 HOH HOH . 
K 4 HOH A 9 509 26 HOH HOH . 
K 4 HOH A 10 510 27 HOH HOH . 
K 4 HOH A 11 511 28 HOH HOH . 
K 4 HOH A 12 512 29 HOH HOH . 
K 4 HOH A 13 513 31 HOH HOH . 
K 4 HOH A 14 514 32 HOH HOH . 
K 4 HOH A 15 515 36 HOH HOH . 
K 4 HOH A 16 516 37 HOH HOH . 
K 4 HOH A 17 517 38 HOH HOH . 
K 4 HOH A 18 518 39 HOH HOH . 
K 4 HOH A 19 519 42 HOH HOH . 
K 4 HOH A 20 520 43 HOH HOH . 
K 4 HOH A 21 521 44 HOH HOH . 
K 4 HOH A 22 522 45 HOH HOH . 
K 4 HOH A 23 523 46 HOH HOH . 
K 4 HOH A 24 524 48 HOH HOH . 
K 4 HOH A 25 525 56 HOH HOH . 
K 4 HOH A 26 526 57 HOH HOH . 
K 4 HOH A 27 527 58 HOH HOH . 
K 4 HOH A 28 528 60 HOH HOH . 
K 4 HOH A 29 529 65 HOH HOH . 
K 4 HOH A 30 530 66 HOH HOH . 
K 4 HOH A 31 531 67 HOH HOH . 
K 4 HOH A 32 532 68 HOH HOH . 
K 4 HOH A 33 533 72 HOH HOH . 
K 4 HOH A 34 534 80 HOH HOH . 
K 4 HOH A 35 535 83 HOH HOH . 
L 4 HOH B 1 501 12 HOH HOH . 
L 4 HOH B 2 502 13 HOH HOH . 
L 4 HOH B 3 503 17 HOH HOH . 
L 4 HOH B 4 504 18 HOH HOH . 
L 4 HOH B 5 505 19 HOH HOH . 
L 4 HOH B 6 506 20 HOH HOH . 
L 4 HOH B 7 507 21 HOH HOH . 
L 4 HOH B 8 508 30 HOH HOH . 
L 4 HOH B 9 509 33 HOH HOH . 
L 4 HOH B 10 510 40 HOH HOH . 
L 4 HOH B 11 511 49 HOH HOH . 
L 4 HOH B 12 512 54 HOH HOH . 
L 4 HOH B 13 513 55 HOH HOH . 
L 4 HOH B 14 514 62 HOH HOH . 
L 4 HOH B 15 515 63 HOH HOH . 
L 4 HOH B 16 516 74 HOH HOH . 
L 4 HOH B 17 517 78 HOH HOH . 
M 4 HOH C 1 501 3 HOH HOH . 
M 4 HOH C 2 502 6 HOH HOH . 
M 4 HOH C 3 503 8 HOH HOH . 
M 4 HOH C 4 504 41 HOH HOH . 
M 4 HOH C 5 505 50 HOH HOH . 
M 4 HOH C 6 506 51 HOH HOH . 
M 4 HOH C 7 507 59 HOH HOH . 
M 4 HOH C 8 508 61 HOH HOH . 
M 4 HOH C 9 509 64 HOH HOH . 
M 4 HOH C 10 510 69 HOH HOH . 
M 4 HOH C 11 511 71 HOH HOH . 
M 4 HOH C 12 512 75 HOH HOH . 
M 4 HOH C 13 513 77 HOH HOH . 
M 4 HOH C 14 514 81 HOH HOH . 
N 4 HOH D 1 501 70 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 P PA NAD . . . E 2 -2.626 2.971 57.707 1 19.49 ? PA NAD 401 A 1 
HETATM 2 O O1A NAD . . . E 2 -3.894 2.645 58.425 1 25.76 ? O1A NAD 401 A 1 
HETATM 3 O O2A NAD . . . E 2 -1.964 4.291 57.89 1 25.04 ? O2A NAD 401 A 1 
HETATM 4 O O5B NAD . . . E 2 -1.608 1.861 58.228 1 24.26 ? O5B NAD 401 A 1 
HETATM 5 C C5B NAD . . . E 2 -0.307 1.818 57.713 1 23.09 ? C5B NAD 401 A 1 
HETATM 6 C C4B NAD . . . E 2 0.435 0.947 58.696 1 26.04 ? C4B NAD 401 A 1 
HETATM 7 O O4B NAD . . . E 2 1.789 0.884 58.254 1 26.1 ? O4B NAD 401 A 1 
HETATM 8 C C3B NAD . . . E 2 0.415 1.528 60.113 1 24.8 ? C3B NAD 401 A 1 
HETATM 9 O O3B NAD . . . E 2 -0.02 0.558 61.088 1 21.09 ? O3B NAD 401 A 1 
HETATM 10 C C2B NAD . . . E 2 1.868 1.934 60.32 1 24.42 ? C2B NAD 401 A 1 
HETATM 11 O O2B NAD . . . E 2 2.366 1.734 61.633 1 25.07 ? O2B NAD 401 A 1 
HETATM 12 C C1B NAD . . . E 2 2.59 0.978 59.406 1 26.15 ? C1B NAD 401 A 1 
HETATM 13 N N9A NAD . . . E 2 3.935 1.47 59.087 1 29.87 ? N9A NAD 401 A 1 
HETATM 14 C C8A NAD . . . E 2 4.301 2.732 58.838 1 26.23 ? C8A NAD 401 A 1 
HETATM 15 N N7A NAD . . . E 2 5.63 2.774 58.609 1 27.57 ? N7A NAD 401 A 1 
HETATM 16 C C5A NAD . . . E 2 6.124 1.521 58.711 1 29.36 ? C5A NAD 401 A 1 
HETATM 17 C C6A NAD . . . E 2 7.441 0.841 58.608 1 25.99 ? C6A NAD 401 A 1 
HETATM 18 N N6A NAD . . . E 2 8.564 1.512 58.314 1 25.42 ? N6A NAD 401 A 1 
HETATM 19 N N1A NAD . . . E 2 7.491 -0.483 58.786 1 25.46 ? N1A NAD 401 A 1 
HETATM 20 C C2A NAD . . . E 2 6.398 -1.2 59.071 1 27.22 ? C2A NAD 401 A 1 
HETATM 21 N N3A NAD . . . E 2 5.182 -0.659 59.199 1 24.35 ? N3A NAD 401 A 1 
HETATM 22 C C4A NAD . . . E 2 4.989 0.667 59.023 1 28.22 ? C4A NAD 401 A 1 
HETATM 23 O O3 NAD . . . E 2 -2.773 2.662 56.146 1 18.53 ? O3 NAD 401 A 1 
HETATM 24 P PN NAD . . . E 2 -3.927 1.659 55.602 1 21.26 ? PN NAD 401 A 1 
HETATM 25 O O1N NAD . . . E 2 -3.856 0.356 56.341 1 19.5 ? O1N NAD 401 A 1 
HETATM 26 O O2N NAD . . . E 2 -5.252 2.352 55.484 1 20.71 ? O2N NAD 401 A 1 
HETATM 27 O O5D NAD . . . E 2 -3.382 1.461 54.076 1 21.77 ? O5D NAD 401 A 1 
HETATM 28 C C5D NAD . . . E 2 -2.692 0.268 53.766 1 20.48 ? C5D NAD 401 A 1 
HETATM 29 C C4D NAD . . . E 2 -2.137 0.319 52.357 1 21.24 ? C4D NAD 401 A 1 
HETATM 30 O O4D NAD . . . E 2 -3.193 0.485 51.421 1 18.6 ? O4D NAD 401 A 1 
HETATM 31 C C3D NAD . . . E 2 -1.198 1.476 52.108 1 20.72 ? C3D NAD 401 A 1 
HETATM 32 O O3D NAD . . . E 2 -0.246 1.109 51.099 1 20.45 ? O3D NAD 401 A 1 
HETATM 33 C C2D NAD . . . E 2 -2.11 2.531 51.544 1 18.71 ? C2D NAD 401 A 1 
HETATM 34 O O2D NAD . . . E 2 -1.418 3.404 50.671 1 18.06 ? O2D NAD 401 A 1 
HETATM 35 C C1D NAD . . . E 2 -3.068 1.72 50.729 1 18.51 ? C1D NAD 401 A 1 
HETATM 36 N N1N NAD . . . E 2 -4.377 2.374 50.536 1 20.42 ? N1N NAD 401 A 1 
HETATM 37 C C2N NAD . . . E 2 -5.231 2.537 51.563 1 21.93 ? C2N NAD 401 A 1 
HETATM 38 C C3N NAD . . . E 2 -6.485 3.134 51.369 1 22.09 ? C3N NAD 401 A 1 
HETATM 39 C C7N NAD . . . E 2 -7.445 3.348 52.508 1 21.99 ? C7N NAD 401 A 1 
HETATM 40 O O7N NAD . . . E 2 -8.414 4.041 52.338 1 22.58 ? O7N NAD 401 A 1 
HETATM 41 N N7N NAD . . . E 2 -7.241 2.789 53.691 1 22.01 ? N7N NAD 401 A 1 
HETATM 42 C C4N NAD . . . E 2 -6.842 3.562 50.101 1 19.59 ? C4N NAD 401 A 1 
HETATM 43 C C5N NAD . . . E 2 -5.951 3.364 49.053 1 20.78 ? C5N NAD 401 A 1 
HETATM 44 C C6N NAD . . . E 2 -4.719 2.76 49.297 1 18.88 ? C6N NAD 401 A 1 
#
_model_server_stats.io_time_ms              53 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    18 
_model_server_stats.query_time_ms           309 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           44 
#