data_3AKC
#
_model_server_result.job_id            2pZxJ_nD-d6pZNPZqfRJKQ 
_model_server_result.datetime_utc      '2024-10-19 08:22:08' 
_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          3akc 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":210}' 
#
_entry.id    3AKC 
#
_exptl.entry_id    3AKC 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-DIPHOSPHATE" 
_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         120 
_cell.entry_id            3AKC 
_cell.length_a            62.206 
_cell.length_b            62.206 
_cell.length_c            110.951 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3AKC 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        170 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 65' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             C 
_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
metalc ? metalc1 A OG SER 16 A SER 16 1_555 D GD GD . A GD 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.399 ? 
metalc ? metalc2 B O2B CDP . A CDP 209 1_555 D GD GD . A GD 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.374 ? 
metalc ? metalc3 C O3B ADP . A ADP 210 1_555 D GD GD . A GD 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.432 ? 
metalc ? metalc4 C O2A ADP . A ADP 210 1_555 D GD GD . A GD 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.591 ? 
metalc ? metalc5 C O2B ADP . A ADP 210 1_555 D GD GD . A GD 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.957 ? 
metalc ? metalc6 D GD GD . A GD 211 1_555 E O HOH . A HOH 218 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.465 ? 
metalc ? metalc7 D GD GD . A GD 211 1_555 E O HOH . A HOH 223 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.429 ? 
metalc ? metalc8 D GD GD . A GD 211 1_555 E O HOH . A HOH 226 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.478 ? 
metalc ? metalc9 D GD GD . A GD 211 1_555 E O HOH . A HOH 269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.413 ? 
#
_chem_comp.formula           'C10 H15 N5 O10 P2' 
_chem_comp.formula_weight    427.201 
_chem_comp.id                ADP 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              "ADENOSINE-5'-DIPHOSPHATE" 
_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
PB O1B ADP doub 1 n n 
PB O2B ADP sing 2 n n 
PB O3B ADP sing 3 n n 
PB O3A ADP sing 4 n n 
O2B HOB2 ADP sing 5 n n 
O3B HOB3 ADP sing 6 n n 
PA O1A ADP doub 7 n n 
PA O2A ADP sing 8 n n 
PA O3A ADP sing 9 n n 
PA O5' ADP sing 10 n n 
O2A HOA2 ADP sing 11 n n 
O5' C5' ADP sing 12 n n 
C5' C4' ADP sing 13 n n 
C5' "H5'1" ADP sing 14 n n 
C5' "H5'2" ADP sing 15 n n 
C4' O4' ADP sing 16 n n 
C4' C3' ADP sing 17 n n 
C4' H4' ADP sing 18 n n 
O4' C1' ADP sing 19 n n 
C3' O3' ADP sing 20 n n 
C3' C2' ADP sing 21 n n 
C3' H3' ADP sing 22 n n 
O3' HO3' ADP sing 23 n n 
C2' O2' ADP sing 24 n n 
C2' C1' ADP sing 25 n n 
C2' H2' ADP sing 26 n n 
O2' HO2' ADP sing 27 n n 
C1' N9 ADP sing 28 n n 
C1' H1' ADP sing 29 n n 
N9 C8 ADP sing 30 n y 
N9 C4 ADP sing 31 n y 
C8 N7 ADP doub 32 n y 
C8 H8 ADP sing 33 n n 
N7 C5 ADP sing 34 n y 
C5 C6 ADP sing 35 n y 
C5 C4 ADP doub 36 n y 
C6 N6 ADP sing 37 n n 
C6 N1 ADP doub 38 n y 
N6 HN61 ADP sing 39 n n 
N6 HN62 ADP sing 40 n n 
N1 C2 ADP sing 41 n y 
C2 N3 ADP doub 42 n y 
C2 H2 ADP sing 43 n n 
N3 C4 ADP sing 44 n y 
#
_atom_sites.entry_id                     3AKC 
_atom_sites.fract_transf_matrix[1][1]    0.016076 
_atom_sites.fract_transf_matrix[1][2]    0.009281 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.018563 
_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]    0.009013 
_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 CDP A 1 209 209 CDP CDP . 
C 3 ADP A 1 210 210 ADP ADP . 
D 4 GD A 1 211 211 GD GD . 
E 5 HOH A 1 212 1 HOH TIP . 
E 5 HOH A 2 213 2 HOH TIP . 
E 5 HOH A 3 214 3 HOH TIP . 
E 5 HOH A 4 215 4 HOH TIP . 
E 5 HOH A 5 216 5 HOH TIP . 
E 5 HOH A 6 217 6 HOH TIP . 
E 5 HOH A 7 218 7 HOH TIP . 
E 5 HOH A 8 219 8 HOH TIP . 
E 5 HOH A 9 220 10 HOH TIP . 
E 5 HOH A 10 221 11 HOH TIP . 
E 5 HOH A 11 222 12 HOH TIP . 
E 5 HOH A 12 223 13 HOH TIP . 
E 5 HOH A 13 224 14 HOH TIP . 
E 5 HOH A 14 225 15 HOH TIP . 
E 5 HOH A 15 226 16 HOH TIP . 
E 5 HOH A 16 227 17 HOH TIP . 
E 5 HOH A 17 228 18 HOH TIP . 
E 5 HOH A 18 229 19 HOH TIP . 
E 5 HOH A 19 230 20 HOH TIP . 
E 5 HOH A 20 231 21 HOH TIP . 
E 5 HOH A 21 232 22 HOH TIP . 
E 5 HOH A 22 233 23 HOH TIP . 
E 5 HOH A 23 234 24 HOH TIP . 
E 5 HOH A 24 235 25 HOH TIP . 
E 5 HOH A 25 236 26 HOH TIP . 
E 5 HOH A 26 237 27 HOH TIP . 
E 5 HOH A 27 238 28 HOH TIP . 
E 5 HOH A 28 239 29 HOH TIP . 
E 5 HOH A 29 240 30 HOH TIP . 
E 5 HOH A 30 241 31 HOH TIP . 
E 5 HOH A 31 242 32 HOH TIP . 
E 5 HOH A 32 243 33 HOH TIP . 
E 5 HOH A 33 244 34 HOH TIP . 
E 5 HOH A 34 245 35 HOH TIP . 
E 5 HOH A 35 246 36 HOH TIP . 
E 5 HOH A 36 247 37 HOH TIP . 
E 5 HOH A 37 248 38 HOH TIP . 
E 5 HOH A 38 249 39 HOH TIP . 
E 5 HOH A 39 250 40 HOH TIP . 
E 5 HOH A 40 251 41 HOH TIP . 
E 5 HOH A 41 252 42 HOH TIP . 
E 5 HOH A 42 253 43 HOH TIP . 
E 5 HOH A 43 254 44 HOH TIP . 
E 5 HOH A 44 255 45 HOH TIP . 
E 5 HOH A 45 256 46 HOH TIP . 
E 5 HOH A 46 257 47 HOH TIP . 
E 5 HOH A 47 258 48 HOH TIP . 
E 5 HOH A 48 259 49 HOH TIP . 
E 5 HOH A 49 260 50 HOH TIP . 
E 5 HOH A 50 261 51 HOH TIP . 
E 5 HOH A 51 262 52 HOH TIP . 
E 5 HOH A 52 263 53 HOH TIP . 
E 5 HOH A 53 264 54 HOH TIP . 
E 5 HOH A 54 265 55 HOH TIP . 
E 5 HOH A 55 266 56 HOH TIP . 
E 5 HOH A 56 267 57 HOH TIP . 
E 5 HOH A 57 268 58 HOH TIP . 
E 5 HOH A 58 269 59 HOH TIP . 
E 5 HOH A 59 270 60 HOH TIP . 
E 5 HOH A 60 271 61 HOH TIP . 
E 5 HOH A 61 272 62 HOH TIP . 
E 5 HOH A 62 273 63 HOH TIP . 
E 5 HOH A 63 274 64 HOH TIP . 
E 5 HOH A 64 275 65 HOH TIP . 
E 5 HOH A 65 276 66 HOH TIP . 
E 5 HOH A 66 277 67 HOH TIP . 
E 5 HOH A 67 278 68 HOH TIP . 
E 5 HOH A 68 279 69 HOH TIP . 
E 5 HOH A 69 280 70 HOH TIP . 
E 5 HOH A 70 281 71 HOH TIP . 
E 5 HOH A 71 282 72 HOH TIP . 
E 5 HOH A 72 283 73 HOH TIP . 
E 5 HOH A 73 284 74 HOH TIP . 
E 5 HOH A 74 285 75 HOH TIP . 
E 5 HOH A 75 286 76 HOH TIP . 
E 5 HOH A 76 287 77 HOH TIP . 
E 5 HOH A 77 288 78 HOH TIP . 
E 5 HOH A 78 289 79 HOH TIP . 
E 5 HOH A 79 290 80 HOH TIP . 
E 5 HOH A 80 291 81 HOH TIP . 
E 5 HOH A 81 292 82 HOH TIP . 
E 5 HOH A 82 293 83 HOH TIP . 
E 5 HOH A 83 294 84 HOH TIP . 
E 5 HOH A 84 295 85 HOH TIP . 
E 5 HOH A 85 296 86 HOH TIP . 
E 5 HOH A 86 297 87 HOH TIP . 
E 5 HOH A 87 298 88 HOH TIP . 
E 5 HOH A 88 299 89 HOH TIP . 
E 5 HOH A 89 300 90 HOH TIP . 
E 5 HOH A 90 301 91 HOH TIP . 
E 5 HOH A 91 302 92 HOH TIP . 
E 5 HOH A 92 303 93 HOH TIP . 
E 5 HOH A 93 304 94 HOH TIP . 
E 5 HOH A 94 305 95 HOH TIP . 
E 5 HOH A 95 306 96 HOH TIP . 
E 5 HOH A 96 307 97 HOH TIP . 
E 5 HOH A 97 308 98 HOH TIP . 
E 5 HOH A 98 309 99 HOH TIP . 
E 5 HOH A 99 310 100 HOH TIP . 
E 5 HOH A 100 311 101 HOH TIP . 
E 5 HOH A 101 312 102 HOH TIP . 
E 5 HOH A 102 313 103 HOH TIP . 
E 5 HOH A 103 314 104 HOH TIP . 
E 5 HOH A 104 315 105 HOH TIP . 
E 5 HOH A 105 316 106 HOH TIP . 
E 5 HOH A 106 317 107 HOH TIP . 
E 5 HOH A 107 318 108 HOH TIP . 
E 5 HOH A 108 319 109 HOH TIP . 
E 5 HOH A 109 320 110 HOH TIP . 
E 5 HOH A 110 321 111 HOH TIP . 
E 5 HOH A 111 322 112 HOH TIP . 
E 5 HOH A 112 323 113 HOH TIP . 
E 5 HOH A 113 324 114 HOH TIP . 
E 5 HOH A 114 325 115 HOH TIP . 
E 5 HOH A 115 326 116 HOH TIP . 
E 5 HOH A 116 327 117 HOH TIP . 
#
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 PB ADP . . . C 3 -3.8 35.455 21.335 1 26.81 ? PB ADP 210 A 1 
HETATM 2 O O1B ADP . . . C 3 -3.206 36.807 21.343 1 27.88 ? O1B ADP 210 A 1 
HETATM 3 O O2B ADP . . . C 3 -3.367 34.688 20.021 1 28.38 ? O2B ADP 210 A 1 
HETATM 4 O O3B ADP . . . C 3 -5.219 35.535 21.399 1 27.95 ? O3B ADP 210 A 1 
HETATM 5 P PA ADP . . . C 3 -3.757 33.309 23.031 1 27.31 ? PA ADP 210 A 1 
HETATM 6 O O1A ADP . . . C 3 -4.406 33.373 24.417 1 28.73 ? O1A ADP 210 A 1 
HETATM 7 O O2A ADP . . . C 3 -4.721 32.823 22.14 1 28.14 ? O2A ADP 210 A 1 
HETATM 8 O O3A ADP . . . C 3 -3.228 34.729 22.565 1 28.18 ? O3A ADP 210 A 1 
HETATM 9 O O5' ADP . . . C 3 -2.614 32.363 23.016 1 28.74 ? O5' ADP 210 A 1 
HETATM 10 C C5' ADP . . . C 3 -1.411 32.681 23.748 1 28.83 ? C5' ADP 210 A 1 
HETATM 11 C C4' ADP . . . C 3 -0.586 31.568 24.091 1 29.11 ? C4' ADP 210 A 1 
HETATM 12 O O4' ADP . . . C 3 0.591 31.98 24.841 1 28.44 ? O4' ADP 210 A 1 
HETATM 13 C C3' ADP . . . C 3 -1.316 30.692 24.969 1 29.14 ? C3' ADP 210 A 1 
HETATM 14 O O3' ADP . . . C 3 -0.929 29.457 24.6 1 29.53 ? O3' ADP 210 A 1 
HETATM 15 C C2' ADP . . . C 3 -0.827 31.01 26.323 1 28.96 ? C2' ADP 210 A 1 
HETATM 16 O O2' ADP . . . C 3 -0.995 30.023 27.189 1 28.68 ? O2' ADP 210 A 1 
HETATM 17 C C1' ADP . . . C 3 0.589 31.355 26.067 1 29.07 ? C1' ADP 210 A 1 
HETATM 18 N N9 ADP . . . C 3 0.875 32.39 27.239 1 29.26 ? N9 ADP 210 A 1 
HETATM 19 C C8 ADP . . . C 3 2.093 32.363 27.762 1 28.93 ? C8 ADP 210 A 1 
HETATM 20 N N7 ADP . . . C 3 2.265 33.435 28.489 1 28.43 ? N7 ADP 210 A 1 
HETATM 21 C C5 ADP . . . C 3 1.163 34.156 28.39 1 29.09 ? C5 ADP 210 A 1 
HETATM 22 C C6 ADP . . . C 3 0.834 35.353 28.931 1 29.22 ? C6 ADP 210 A 1 
HETATM 23 N N6 ADP . . . C 3 1.716 36.086 29.717 1 29.38 ? N6 ADP 210 A 1 
HETATM 24 N N1 ADP . . . C 3 -0.359 35.881 28.689 1 29.29 ? N1 ADP 210 A 1 
HETATM 25 C C2 ADP . . . C 3 -1.204 35.196 27.895 1 28.88 ? C2 ADP 210 A 1 
HETATM 26 N N3 ADP . . . C 3 -0.935 34.027 27.339 1 29.07 ? N3 ADP 210 A 1 
HETATM 27 C C4 ADP . . . C 3 0.265 33.506 27.595 1 28.99 ? C4 ADP 210 A 1 
#
_model_server_stats.io_time_ms              53 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           275 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           27 
#