data_7ZVD
#
_model_server_result.job_id            AQRrMi7cKtPZZ6Zo-F9YbA 
_model_server_result.datetime_utc      '2024-11-14 16:53:45' 
_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          7zvd 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":601}' 
#
_entry.id    7ZVD 
#
_exptl.entry_id    7ZVD 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              743.405 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' 
_entity.pdbx_number_of_molecules    1 
_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            7ZVD 
_cell.length_a            60.22 
_cell.length_b            172.22 
_cell.length_c            216.48 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7ZVD 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        22 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'F 2 2 2' 
#
_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 11_455 -x-1/2,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 -30.11 0 108.24 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             B 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 C PHE 61 N PHE 88 1_555 A N ALY 62 N ALY 89 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? 
covale ? covale2 A C ALY 62 N ALY 89 1_555 A N ALA 63 N ALA 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? 
#
_chem_comp.formula           'C21 H28 N7 O17 P3' 
_chem_comp.formula_weight    743.405 
_chem_comp.id                NAP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     "2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE" 
#
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 NAP doub 265 n n 
PA O2A NAP sing 266 n n 
PA O5B NAP sing 267 n n 
PA O3 NAP sing 268 n n 
O2A HOA2 NAP sing 269 n n 
O5B C5B NAP sing 270 n n 
C5B C4B NAP sing 271 n n 
C5B H51A NAP sing 272 n n 
C5B H52A NAP sing 273 n n 
C4B O4B NAP sing 274 n n 
C4B C3B NAP sing 275 n n 
C4B H4B NAP sing 276 n n 
O4B C1B NAP sing 277 n n 
C3B O3B NAP sing 278 n n 
C3B C2B NAP sing 279 n n 
C3B H3B NAP sing 280 n n 
O3B HO3A NAP sing 281 n n 
C2B O2B NAP sing 282 n n 
C2B C1B NAP sing 283 n n 
C2B H2B NAP sing 284 n n 
O2B P2B NAP sing 285 n n 
C1B N9A NAP sing 286 n n 
C1B H1B NAP sing 287 n n 
N9A C8A NAP sing 288 n y 
N9A C4A NAP sing 289 n y 
C8A N7A NAP doub 290 n y 
C8A H8A NAP sing 291 n n 
N7A C5A NAP sing 292 n y 
C5A C6A NAP sing 293 n y 
C5A C4A NAP doub 294 n y 
C6A N6A NAP sing 295 n n 
C6A N1A NAP doub 296 n y 
N6A H61A NAP sing 297 n n 
N6A H62A NAP sing 298 n n 
N1A C2A NAP sing 299 n y 
C2A N3A NAP doub 300 n y 
C2A H2A NAP sing 301 n n 
N3A C4A NAP sing 302 n y 
O3 PN NAP sing 303 n n 
PN O1N NAP doub 304 n n 
PN O2N NAP sing 305 n n 
PN O5D NAP sing 306 n n 
O5D C5D NAP sing 307 n n 
C5D C4D NAP sing 308 n n 
C5D H51N NAP sing 309 n n 
C5D H52N NAP sing 310 n n 
C4D O4D NAP sing 311 n n 
C4D C3D NAP sing 312 n n 
C4D H4D NAP sing 313 n n 
O4D C1D NAP sing 314 n n 
C3D O3D NAP sing 315 n n 
C3D C2D NAP sing 316 n n 
C3D H3D NAP sing 317 n n 
O3D HO3N NAP sing 318 n n 
C2D O2D NAP sing 319 n n 
C2D C1D NAP sing 320 n n 
C2D H2D NAP sing 321 n n 
O2D HO2N NAP sing 322 n n 
C1D N1N NAP sing 323 n n 
C1D H1D NAP sing 324 n n 
N1N C2N NAP sing 325 n y 
N1N C6N NAP doub 326 n y 
C2N C3N NAP doub 327 n y 
C2N H2N NAP sing 328 n n 
C3N C7N NAP sing 329 n n 
C3N C4N NAP sing 330 n y 
C7N O7N NAP doub 331 n n 
C7N N7N NAP sing 332 n n 
N7N H71N NAP sing 333 n n 
N7N H72N NAP sing 334 n n 
C4N C5N NAP doub 335 n y 
C4N H4N NAP sing 336 n n 
C5N C6N NAP sing 337 n y 
C5N H5N NAP sing 338 n n 
C6N H6N NAP sing 339 n n 
P2B O1X NAP doub 340 n n 
P2B O2X NAP sing 341 n n 
P2B O3X NAP sing 342 n n 
O2X HOP2 NAP sing 343 n n 
O3X HOP3 NAP sing 344 n n 
#
_atom_sites.entry_id                     7ZVD 
_atom_sites.fract_transf_matrix[1][1]    0.016606 
_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]    0.005807 
_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]    0.004619 
_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
B 2 NAP N 1 601 601 NAP NAP . 
C 3 HOH N 1 701 11 HOH HOH . 
C 3 HOH N 2 702 35 HOH HOH . 
C 3 HOH N 3 703 85 HOH HOH . 
C 3 HOH N 4 704 33 HOH HOH . 
C 3 HOH N 5 705 37 HOH HOH . 
C 3 HOH N 6 706 9 HOH HOH . 
C 3 HOH N 7 707 54 HOH HOH . 
C 3 HOH N 8 708 83 HOH HOH . 
C 3 HOH N 9 709 50 HOH HOH . 
C 3 HOH N 10 710 34 HOH HOH . 
C 3 HOH N 11 711 3 HOH HOH . 
C 3 HOH N 12 712 55 HOH HOH . 
C 3 HOH N 13 713 66 HOH HOH . 
C 3 HOH N 14 714 67 HOH HOH . 
C 3 HOH N 15 715 44 HOH HOH . 
C 3 HOH N 16 716 21 HOH HOH . 
C 3 HOH N 17 717 45 HOH HOH . 
C 3 HOH N 18 718 14 HOH HOH . 
C 3 HOH N 19 719 46 HOH HOH . 
C 3 HOH N 20 720 84 HOH HOH . 
C 3 HOH N 21 721 28 HOH HOH . 
C 3 HOH N 22 722 52 HOH HOH . 
C 3 HOH N 23 723 77 HOH HOH . 
C 3 HOH N 24 724 30 HOH HOH . 
C 3 HOH N 25 725 22 HOH HOH . 
C 3 HOH N 26 726 23 HOH HOH . 
C 3 HOH N 27 727 18 HOH HOH . 
C 3 HOH N 28 728 86 HOH HOH . 
C 3 HOH N 29 729 49 HOH HOH . 
C 3 HOH N 30 730 91 HOH HOH . 
C 3 HOH N 31 731 36 HOH HOH . 
C 3 HOH N 32 732 76 HOH HOH . 
C 3 HOH N 33 733 12 HOH HOH . 
C 3 HOH N 34 734 90 HOH HOH . 
C 3 HOH N 35 735 6 HOH HOH . 
C 3 HOH N 36 736 70 HOH HOH . 
C 3 HOH N 37 737 58 HOH HOH . 
C 3 HOH N 38 738 2 HOH HOH . 
C 3 HOH N 39 739 48 HOH HOH . 
C 3 HOH N 40 740 31 HOH HOH . 
C 3 HOH N 41 741 25 HOH HOH . 
C 3 HOH N 42 742 94 HOH HOH . 
C 3 HOH N 43 743 62 HOH HOH . 
C 3 HOH N 44 744 74 HOH HOH . 
C 3 HOH N 45 745 93 HOH HOH . 
C 3 HOH N 46 746 78 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 NAP . . . B 2 -31.144 -18.92 52.108 1 87.28 ? PA NAP 601 N 1 
HETATM 2 O O1A NAP . . . B 2 -31.304 -19.977 53.151 1 80.26 ? O1A NAP 601 N 1 
HETATM 3 O O2A NAP . . . B 2 -31.918 -17.645 52.292 1 89.24 ? O2A NAP 601 N 1 
HETATM 4 O O5B NAP . . . B 2 -31.487 -19.529 50.665 1 80.42 ? O5B NAP 601 N 1 
HETATM 5 C C5B NAP . . . B 2 -31.676 -20.97 50.613 1 97.54 ? C5B NAP 601 N 1 
HETATM 6 C C4B NAP . . . B 2 -32.514 -21.381 49.43 1 98.7 ? C4B NAP 601 N 1 
HETATM 7 O O4B NAP . . . B 2 -33.86 -21.665 49.87 1 87.26 ? O4B NAP 601 N 1 
HETATM 8 C C3B NAP . . . B 2 -32.709 -20.381 48.274 1 101.64 ? C3B NAP 601 N 1 
HETATM 9 O O3B NAP . . . B 2 -32.016 -20.976 47.179 1 79.67 ? O3B NAP 601 N 1 
HETATM 10 C C2B NAP . . . B 2 -34.242 -20.247 48.166 1 98.57 ? C2B NAP 601 N 1 
HETATM 11 O O2B NAP . . . B 2 -34.599 -19.991 46.799 1 105.68 ? O2B NAP 601 N 1 
HETATM 12 C C1B NAP . . . B 2 -34.662 -21.611 48.719 1 93.49 ? C1B NAP 601 N 1 
HETATM 13 N N9A NAP . . . B 2 -36.044 -21.897 49.137 1 90.92 ? N9A NAP 601 N 1 
HETATM 14 C C8A NAP . . . B 2 -36.689 -23.116 49.028 1 81.84 ? C8A NAP 601 N 1 
HETATM 15 N N7A NAP . . . B 2 -37.858 -23.172 49.618 1 74.88 ? N7A NAP 601 N 1 
HETATM 16 C C5A NAP . . . B 2 -38.014 -21.897 50.136 1 76.81 ? C5A NAP 601 N 1 
HETATM 17 C C6A NAP . . . B 2 -39.089 -21.283 50.808 1 78.25 ? C6A NAP 601 N 1 
HETATM 18 N N6A NAP . . . B 2 -40.232 -21.901 51.089 1 81.8 ? N6A NAP 601 N 1 
HETATM 19 N N1A NAP . . . B 2 -38.929 -19.984 51.169 1 90.55 ? N1A NAP 601 N 1 
HETATM 20 C C2A NAP . . . B 2 -37.778 -19.365 50.841 1 86.42 ? C2A NAP 601 N 1 
HETATM 21 N N3A NAP . . . B 2 -36.709 -19.835 50.209 1 73.31 ? N3A NAP 601 N 1 
HETATM 22 C C4A NAP . . . B 2 -36.896 -21.114 49.869 1 74.66 ? C4A NAP 601 N 1 
HETATM 23 O O3 NAP . . . B 2 -29.55 -18.645 52.043 1 87.82 ? O3 NAP 601 N 1 
HETATM 24 P PN NAP . . . B 2 -28.57 -17.98 50.958 1 87.74 ? PN NAP 601 N 1 
HETATM 25 O O1N NAP . . . B 2 -29.416 -17.588 49.798 1 97.08 ? O1N NAP 601 N 1 
HETATM 26 O O2N NAP . . . B 2 -27.411 -18.87 50.652 1 80.35 ? O2N NAP 601 N 1 
HETATM 27 O O5D NAP . . . B 2 -28.069 -16.666 51.734 1 87.08 ? O5D NAP 601 N 1 
HETATM 28 C C5D NAP . . . B 2 -28.961 -15.57 52.116 1 85.43 ? C5D NAP 601 N 1 
HETATM 29 C C4D NAP . . . B 2 -28.473 -14.275 51.507 1 89.62 ? C4D NAP 601 N 1 
HETATM 30 O O4D NAP . . . B 2 -27.143 -13.976 51.98 1 87.68 ? O4D NAP 601 N 1 
HETATM 31 C C3D NAP . . . B 2 -28.399 -14.233 49.964 1 84.67 ? C3D NAP 601 N 1 
HETATM 32 O O3D NAP . . . B 2 -28.959 -13.035 49.455 1 81.42 ? O3D NAP 601 N 1 
HETATM 33 C C2D NAP . . . B 2 -26.901 -14.294 49.638 1 92.9 ? C2D NAP 601 N 1 
HETATM 34 O O2D NAP . . . B 2 -26.519 -13.587 48.462 1 96.58 ? O2D NAP 601 N 1 
HETATM 35 C C1D NAP . . . B 2 -26.313 -13.595 50.869 1 99.17 ? C1D NAP 601 N 1 
HETATM 36 N N1N NAP . . . B 2 -24.893 -13.987 51.1 1 95.38 ? N1N NAP 601 N 1 
HETATM 37 C C2N NAP . . . B 2 -23.902 -13.399 50.331 1 89.11 ? C2N NAP 601 N 1 
HETATM 38 C C3N NAP . . . B 2 -22.575 -13.784 50.528 1 92.53 ? C3N NAP 601 N 1 
HETATM 39 C C7N NAP . . . B 2 -21.497 -13.182 49.678 1 87.6 ? C7N NAP 601 N 1 
HETATM 40 O O7N NAP . . . B 2 -21.548 -13.353 48.457 1 76.97 ? O7N NAP 601 N 1 
HETATM 41 N N7N NAP . . . B 2 -20.504 -12.513 50.249 1 92.55 ? N7N NAP 601 N 1 
HETATM 42 C C4N NAP . . . B 2 -22.258 -14.777 51.457 1 96.35 ? C4N NAP 601 N 1 
HETATM 43 C C5N NAP . . . B 2 -23.255 -15.364 52.213 1 95.27 ? C5N NAP 601 N 1 
HETATM 44 C C6N NAP . . . B 2 -24.568 -14.972 52.021 1 97.81 ? C6N NAP 601 N 1 
HETATM 45 P P2B NAP . . . B 2 -34.073 -18.601 46.133 1 98.87 ? P2B NAP 601 N 1 
HETATM 46 O O1X NAP . . . B 2 -33.95 -17.535 47.209 1 94.96 ? O1X NAP 601 N 1 
HETATM 47 O O2X NAP . . . B 2 -32.769 -18.814 45.383 1 86.76 ? O2X NAP 601 N 1 
HETATM 48 O O3X NAP . . . B 2 -35.225 -18.349 45.176 1 105.91 ? O3X NAP 601 N 1 
#
_model_server_stats.io_time_ms              110 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    19 
_model_server_stats.query_time_ms           282 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           48 
#