data_7UMY
#
_model_server_result.job_id            jRxPr4AyWCyDWnLC5VzZTA 
_model_server_result.datetime_utc      '2024-12-03 20:06:50' 
_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          7umy 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":302}' 
#
_entry.id    7UMY 
#
_exptl.entry_id    7UMY 
_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    6 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          110.297 
_cell.angle_gamma         90 
_cell.entry_id            7UMY 
_cell.length_a            256.215 
_cell.length_b            79.137 
_cell.length_c            89.425 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7UMY 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    'C 2y' 
_symmetry.space_group_name_H-M     'C 1 2 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
? tetrameric 4 author_defined_assembly 1 
? tetrameric 4 author_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,G,H,K,L,O,P,Q,R,S,U,W,X 1 1 
B,I,J,T 2 1,3 
D,M,N,V 2 2,4 
#
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' 1_556 x,y,z+1 1 0 0 0 1 0 0 0 1 -31.020329 0 83.872342 
3 'crystal symmetry operation' 2_556 -x,y,-z+1 -1 0 0 0 1 0 0 0 -1 -31.020329 0 83.872342 
4 'crystal symmetry operation' 2_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 G N N 
? 2 J N N 
? 2 L N N 
? 2 M N N 
? 2 P N N 
? 2 R 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 N ILE 26 A ILE 22 1_555 G O2N NAD . A NAD 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.303 ? 
covale ? covale2 A NZ LYS 170 A LYS 166 1_555 G O2D NAD . A NAD 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.3 ? 
covale ? covale3 C N ILE 26 C ILE 22 1_555 L O2N NAD . C NAD 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.302 ? 
covale ? covale4 C NZ LYS 170 C LYS 166 1_555 L O2D NAD . C NAD 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.3 ? 
covale ? covale5 D N ILE 26 D ILE 22 1_555 M O2N NAD . D NAD 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.301 ? 
covale ? covale6 F N ILE 26 F ILE 22 1_555 R O2N NAD . F NAD 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.301 ? 
#
_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                     7UMY 
_atom_sites.fract_transf_matrix[1][1]    0.003903 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001444 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.012636 
_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]    0.011923 
_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
G 2 NAD A 1 301 301 NAD NAD . 
H 3 NUC A 1 302 302 NUC BRD . 
I 3 NUC B 1 301 301 NUC BRD . 
J 2 NAD B 1 302 302 NAD NAD . 
K 3 NUC C 1 301 301 NUC BRD . 
L 2 NAD C 1 302 302 NAD NAD . 
M 2 NAD D 1 301 301 NAD NAD . 
N 3 NUC D 1 302 302 NUC BRD . 
O 3 NUC E 1 301 301 NUC BRD . 
P 2 NAD E 1 302 302 NAD NAD . 
Q 3 NUC F 1 301 301 NUC BRD . 
R 2 NAD F 1 302 302 NAD NAD . 
S 4 HOH A 1 401 5 HOH HOH . 
S 4 HOH A 2 402 14 HOH HOH . 
S 4 HOH A 3 403 21 HOH HOH . 
S 4 HOH A 4 404 11 HOH HOH . 
T 4 HOH B 1 401 27 HOH HOH . 
T 4 HOH B 2 402 7 HOH HOH . 
U 4 HOH C 1 401 13 HOH HOH . 
U 4 HOH C 2 402 18 HOH HOH . 
U 4 HOH C 3 403 9 HOH HOH . 
U 4 HOH C 4 404 36 HOH HOH . 
U 4 HOH C 5 405 12 HOH HOH . 
U 4 HOH C 6 406 32 HOH HOH . 
U 4 HOH C 7 407 24 HOH HOH . 
U 4 HOH C 8 408 15 HOH HOH . 
U 4 HOH C 9 409 22 HOH HOH . 
V 4 HOH D 1 401 17 HOH HOH . 
W 4 HOH E 1 401 33 HOH HOH . 
W 4 HOH E 2 402 31 HOH HOH . 
X 4 HOH F 1 401 26 HOH HOH . 
X 4 HOH F 2 402 4 HOH HOH . 
X 4 HOH F 3 403 16 HOH HOH . 
X 4 HOH F 4 404 1 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 . . . J 2 7.378 4.48 31.13 1 108.61 ? PA NAD 302 B 1 
HETATM 2 O O1A NAD . . . J 2 7.638 3.803 29.79 1 99.2 ? O1A NAD 302 B 1 
HETATM 3 O O2A NAD . . . J 2 8.338 3.965 32.165 1 110.19 ? O2A NAD 302 B 1 
HETATM 4 O O5B NAD . . . J 2 7.544 6.129 30.967 1 117.27 ? O5B NAD 302 B 1 
HETATM 5 C C5B NAD . . . J 2 8.054 6.862 32.04 1 121.34 ? C5B NAD 302 B 1 
HETATM 6 C C4B NAD . . . J 2 9.373 7.569 31.538 1 128.49 ? C4B NAD 302 B 1 
HETATM 7 O O4B NAD . . . J 2 9.814 8.702 32.533 1 128.51 ? O4B NAD 302 B 1 
HETATM 8 C C3B NAD . . . J 2 10.323 6.733 31.497 1 121.42 ? C3B NAD 302 B 1 
HETATM 9 O O3B NAD . . . J 2 10.871 6.673 30.14 1 118.28 ? O3B NAD 302 B 1 
HETATM 10 C C2B NAD . . . J 2 11.499 7.26 32.56 1 117.77 ? C2B NAD 302 B 1 
HETATM 11 O O2B NAD . . . J 2 12.815 6.946 32.053 1 111.84 ? O2B NAD 302 B 1 
HETATM 12 C C1B NAD . . . J 2 11.344 8.521 32.633 1 121.85 ? C1B NAD 302 B 1 
HETATM 13 N N9A NAD . . . J 2 11.842 9.016 33.954 1 117.32 ? N9A NAD 302 B 1 
HETATM 14 C C8A NAD . . . J 2 11.372 8.67 35.13 1 114.91 ? C8A NAD 302 B 1 
HETATM 15 N N7A NAD . . . J 2 12.051 9.3 36.076 1 112.29 ? N7A NAD 302 B 1 
HETATM 16 C C5A NAD . . . J 2 12.99 10.076 35.481 1 115.62 ? C5A NAD 302 B 1 
HETATM 17 C C6A NAD . . . J 2 13.987 10.952 35.943 1 112.28 ? C6A NAD 302 B 1 
HETATM 18 N N6A NAD . . . J 2 14.154 11.166 37.342 1 106.39 ? N6A NAD 302 B 1 
HETATM 19 N N1A NAD . . . J 2 14.762 11.574 35.069 1 115.89 ? N1A NAD 302 B 1 
HETATM 20 C C2A NAD . . . J 2 14.606 11.375 33.78 1 111 ? C2A NAD 302 B 1 
HETATM 21 N N3A NAD . . . J 2 13.687 10.563 33.302 1 111.07 ? N3A NAD 302 B 1 
HETATM 22 C C4A NAD . . . J 2 12.862 9.898 34.136 1 117.02 ? C4A NAD 302 B 1 
HETATM 23 O O3 NAD . . . J 2 5.831 4.186 31.602 1 97.81 ? O3 NAD 302 B 1 
HETATM 24 P PN NAD . . . J 2 4.575 5.086 30.992 1 90.36 ? PN NAD 302 B 1 
HETATM 25 O O1N NAD . . . J 2 3.35 4.237 30.922 1 98.88 ? O1N NAD 302 B 1 
HETATM 26 O O2N NAD . . . J 2 4.952 5.573 29.59 1 103.07 ? O2N NAD 302 B 1 
HETATM 27 O O5D NAD . . . J 2 4.292 6.424 31.983 1 95.43 ? O5D NAD 302 B 1 
HETATM 28 C C5D NAD . . . J 2 3.991 7.71 31.331 1 111.36 ? C5D NAD 302 B 1 
HETATM 29 C C4D NAD . . . J 2 3.452 8.697 32.4 1 108.17 ? C4D NAD 302 B 1 
HETATM 30 O O4D NAD . . . J 2 2.145 8.623 32.474 1 100.24 ? O4D NAD 302 B 1 
HETATM 31 C C3D NAD . . . J 2 3.976 8.293 33.816 1 104.9 ? C3D NAD 302 B 1 
HETATM 32 O O3D NAD . . . J 2 4.09 9.399 34.593 1 102.14 ? O3D NAD 302 B 1 
HETATM 33 C C2D NAD . . . J 2 2.864 7.414 34.34 1 99.71 ? C2D NAD 302 B 1 
HETATM 34 O O2D NAD . . . J 2 2.925 7.334 35.821 1 101.15 ? O2D NAD 302 B 1 
HETATM 35 C C1D NAD . . . J 2 1.771 8.077 33.94 1 94.98 ? C1D NAD 302 B 1 
HETATM 36 N N1N NAD . . . J 2 0.636 7.211 33.871 1 94.51 ? N1N NAD 302 B 1 
HETATM 37 C C2N NAD . . . J 2 0.826 5.949 33.489 1 97.86 ? C2N NAD 302 B 1 
HETATM 38 C C3N NAD . . . J 2 -0.279 5.083 33.408 1 93.07 ? C3N NAD 302 B 1 
HETATM 39 C C7N NAD . . . J 2 -0.051 3.638 32.97 1 90.95 ? C7N NAD 302 B 1 
HETATM 40 O O7N NAD . . . J 2 -0.931 2.835 33.017 1 88.49 ? O7N NAD 302 B 1 
HETATM 41 N N7N NAD . . . J 2 1.329 3.233 32.476 1 98.71 ? N7N NAD 302 B 1 
HETATM 42 C C4N NAD . . . J 2 -1.544 5.538 33.728 1 84.07 ? C4N NAD 302 B 1 
HETATM 43 C C5N NAD . . . J 2 -1.68 6.878 34.123 1 75.67 ? C5N NAD 302 B 1 
HETATM 44 C C6N NAD . . . J 2 -0.544 7.697 34.182 1 81.89 ? C6N NAD 302 B 1 
#
_model_server_stats.io_time_ms              44 
_model_server_stats.parse_time_ms           24 
_model_server_stats.create_model_time_ms    17 
_model_server_stats.query_time_ms           311 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           44 
#