data_4E03
#
_model_server_result.job_id            VHDcCbxtEz3CTbb6RsS7aw 
_model_server_result.datetime_utc      '2024-11-05 00:58:55' 
_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          4e03 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":501}' 
#
_entry.id    4E03 
#
_exptl.entry_id    4E03 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-DIPHOSPHATE" 
_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          112.64 
_cell.angle_gamma         90 
_cell.entry_id            4E03 
_cell.length_a            54.65 
_cell.length_b            80.23 
_cell.length_c            67 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4E03 
_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
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
PISA dimeric 2 software_defined_assembly 3 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,D,G 1 1 
B,E,F,H 2 1 
A,B,C,D,E,F,G,H 3 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
metalc ? metalc1 A OG1 THR 16 A THR 16 1_555 D MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.437 ? 
metalc ? metalc2 C O2B ADP . A ADP 501 1_555 D MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.636 ? 
metalc ? metalc3 C O3B ADP . A ADP 501 1_555 D MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.753 ? 
metalc ? metalc4 D MG MG . A MG 502 1_555 G O HOH . A HOH 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.386 ? 
metalc ? metalc5 D MG MG . A MG 502 1_555 G O HOH . A HOH 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.47 ? 
metalc ? metalc6 D MG MG . A MG 502 1_555 G O HOH . A HOH 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.33 ? 
metalc ? metalc7 D MG MG . A MG 502 1_555 G O HOH . A HOH 658 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.534 ? 
metalc ? metalc8 B OG1 THR 16 B THR 16 1_555 F MG MG . B MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.168 ? 
metalc ? metalc9 E O2B ADP . B ADP 301 1_555 F MG MG . B MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.532 ? 
metalc ? metalc10 E O3B ADP . B ADP 301 1_555 F MG MG . B MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.781 ? 
metalc ? metalc11 F MG MG . B MG 302 1_555 H O HOH . B HOH 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.43 ? 
metalc ? metalc12 F MG MG . B MG 302 1_555 H O HOH . B HOH 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.202 ? 
metalc ? metalc13 F MG MG . B MG 302 1_555 H O HOH . B HOH 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.404 ? 
metalc ? metalc14 F MG MG . B MG 302 1_555 H O HOH . B HOH 428 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.518 ? 
#
_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                     4E03 
_atom_sites.fract_transf_matrix[1][1]    0.018298 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.007632 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.012464 
_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]    0.016172 
_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 ADP A 1 501 501 ADP ADP . 
D 3 MG A 1 502 155 MG MG . 
E 2 ADP B 1 301 500 ADP ADP . 
F 3 MG B 1 302 3 MG MG . 
G 4 HOH A 1 601 4 HOH TIP . 
G 4 HOH A 2 602 8 HOH TIP . 
G 4 HOH A 3 603 35 HOH TIP . 
G 4 HOH A 4 604 102 HOH TIP . 
G 4 HOH A 5 605 103 HOH TIP . 
G 4 HOH A 6 606 105 HOH TIP . 
G 4 HOH A 7 607 107 HOH TIP . 
G 4 HOH A 8 608 109 HOH TIP . 
G 4 HOH A 9 609 110 HOH TIP . 
G 4 HOH A 10 610 111 HOH TIP . 
G 4 HOH A 11 611 115 HOH TIP . 
G 4 HOH A 12 612 116 HOH TIP . 
G 4 HOH A 13 613 117 HOH TIP . 
G 4 HOH A 14 614 120 HOH TIP . 
G 4 HOH A 15 615 127 HOH TIP . 
G 4 HOH A 16 616 128 HOH TIP . 
G 4 HOH A 17 617 129 HOH TIP . 
G 4 HOH A 18 618 131 HOH TIP . 
G 4 HOH A 19 619 133 HOH TIP . 
G 4 HOH A 20 620 135 HOH TIP . 
G 4 HOH A 21 621 141 HOH TIP . 
G 4 HOH A 22 622 143 HOH TIP . 
G 4 HOH A 23 623 145 HOH TIP . 
G 4 HOH A 24 624 147 HOH TIP . 
G 4 HOH A 25 625 148 HOH TIP . 
G 4 HOH A 26 626 152 HOH TIP . 
G 4 HOH A 27 627 153 HOH TIP . 
G 4 HOH A 28 628 154 HOH TIP . 
G 4 HOH A 29 629 156 HOH TIP . 
G 4 HOH A 30 630 157 HOH TIP . 
G 4 HOH A 31 631 158 HOH TIP . 
G 4 HOH A 32 632 159 HOH TIP . 
G 4 HOH A 33 633 160 HOH TIP . 
G 4 HOH A 34 634 163 HOH TIP . 
G 4 HOH A 35 635 165 HOH TIP . 
G 4 HOH A 36 636 166 HOH TIP . 
G 4 HOH A 37 637 169 HOH TIP . 
G 4 HOH A 38 638 171 HOH TIP . 
G 4 HOH A 39 639 173 HOH TIP . 
G 4 HOH A 40 640 174 HOH TIP . 
G 4 HOH A 41 641 175 HOH TIP . 
G 4 HOH A 42 642 177 HOH TIP . 
G 4 HOH A 43 643 178 HOH TIP . 
G 4 HOH A 44 644 179 HOH TIP . 
G 4 HOH A 45 645 180 HOH TIP . 
G 4 HOH A 46 646 181 HOH TIP . 
G 4 HOH A 47 647 182 HOH TIP . 
G 4 HOH A 48 648 183 HOH TIP . 
G 4 HOH A 49 649 192 HOH TIP . 
G 4 HOH A 50 650 193 HOH TIP . 
G 4 HOH A 51 651 195 HOH TIP . 
G 4 HOH A 52 652 199 HOH TIP . 
G 4 HOH A 53 653 203 HOH TIP . 
G 4 HOH A 54 654 209 HOH TIP . 
G 4 HOH A 55 655 210 HOH TIP . 
G 4 HOH A 56 656 212 HOH TIP . 
G 4 HOH A 57 657 213 HOH TIP . 
G 4 HOH A 58 658 215 HOH TIP . 
G 4 HOH A 59 659 216 HOH TIP . 
G 4 HOH A 60 660 217 HOH TIP . 
G 4 HOH A 61 661 218 HOH TIP . 
G 4 HOH A 62 662 219 HOH TIP . 
G 4 HOH A 63 663 220 HOH TIP . 
G 4 HOH A 64 664 221 HOH TIP . 
G 4 HOH A 65 665 222 HOH TIP . 
G 4 HOH A 66 666 224 HOH TIP . 
G 4 HOH A 67 667 226 HOH TIP . 
G 4 HOH A 68 668 113 HOH TIP . 
G 4 HOH A 69 669 228 HOH TIP . 
H 4 HOH B 1 401 88 HOH TIP . 
H 4 HOH B 2 402 99 HOH TIP . 
H 4 HOH B 3 403 100 HOH TIP . 
H 4 HOH B 4 404 101 HOH TIP . 
H 4 HOH B 5 405 104 HOH TIP . 
H 4 HOH B 6 406 106 HOH TIP . 
H 4 HOH B 7 407 108 HOH TIP . 
H 4 HOH B 8 408 112 HOH TIP . 
H 4 HOH B 9 409 114 HOH TIP . 
H 4 HOH B 10 410 118 HOH TIP . 
H 4 HOH B 11 411 119 HOH TIP . 
H 4 HOH B 12 412 121 HOH TIP . 
H 4 HOH B 13 413 122 HOH TIP . 
H 4 HOH B 14 414 123 HOH TIP . 
H 4 HOH B 15 415 124 HOH TIP . 
H 4 HOH B 16 416 125 HOH TIP . 
H 4 HOH B 17 417 126 HOH TIP . 
H 4 HOH B 18 418 130 HOH TIP . 
H 4 HOH B 19 419 132 HOH TIP . 
H 4 HOH B 20 420 134 HOH TIP . 
H 4 HOH B 21 421 136 HOH TIP . 
H 4 HOH B 22 422 137 HOH TIP . 
H 4 HOH B 23 423 138 HOH TIP . 
H 4 HOH B 24 424 139 HOH TIP . 
H 4 HOH B 25 425 140 HOH TIP . 
H 4 HOH B 26 426 142 HOH TIP . 
H 4 HOH B 27 427 144 HOH TIP . 
H 4 HOH B 28 428 146 HOH TIP . 
H 4 HOH B 29 429 149 HOH TIP . 
H 4 HOH B 30 430 150 HOH TIP . 
H 4 HOH B 31 431 151 HOH TIP . 
H 4 HOH B 32 432 155 HOH TIP . 
H 4 HOH B 33 433 161 HOH TIP . 
H 4 HOH B 34 434 162 HOH TIP . 
H 4 HOH B 35 435 164 HOH TIP . 
H 4 HOH B 36 436 167 HOH TIP . 
H 4 HOH B 37 437 168 HOH TIP . 
H 4 HOH B 38 438 170 HOH TIP . 
H 4 HOH B 39 439 172 HOH TIP . 
H 4 HOH B 40 440 176 HOH TIP . 
H 4 HOH B 41 441 184 HOH TIP . 
H 4 HOH B 42 442 185 HOH TIP . 
H 4 HOH B 43 443 186 HOH TIP . 
H 4 HOH B 44 444 187 HOH TIP . 
H 4 HOH B 45 445 188 HOH TIP . 
H 4 HOH B 46 446 189 HOH TIP . 
H 4 HOH B 47 447 190 HOH TIP . 
H 4 HOH B 48 448 191 HOH TIP . 
H 4 HOH B 49 449 194 HOH TIP . 
H 4 HOH B 50 450 196 HOH TIP . 
H 4 HOH B 51 451 197 HOH TIP . 
H 4 HOH B 52 452 198 HOH TIP . 
H 4 HOH B 53 453 200 HOH TIP . 
H 4 HOH B 54 454 201 HOH TIP . 
H 4 HOH B 55 455 202 HOH TIP . 
H 4 HOH B 56 456 204 HOH TIP . 
H 4 HOH B 57 457 205 HOH TIP . 
H 4 HOH B 58 458 206 HOH TIP . 
H 4 HOH B 59 459 207 HOH TIP . 
H 4 HOH B 60 460 208 HOH TIP . 
H 4 HOH B 61 461 211 HOH TIP . 
H 4 HOH B 62 462 214 HOH TIP . 
H 4 HOH B 63 463 223 HOH TIP . 
H 4 HOH B 64 464 225 HOH TIP . 
H 4 HOH B 65 465 227 HOH TIP . 
H 4 HOH B 66 466 229 HOH TIP . 
H 4 HOH B 67 467 230 HOH TIP . 
H 4 HOH B 68 468 231 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 2 -13.928 -4.596 26.73 1 35.69 ? PB ADP 501 A 1 
HETATM 2 O O1B ADP . . . C 2 -13.691 -5.116 28.056 1 41.38 ? O1B ADP 501 A 1 
HETATM 3 O O2B ADP . . . C 2 -13.335 -3.59 25.894 1 39.92 ? O2B ADP 501 A 1 
HETATM 4 O O3B ADP . . . C 2 -15.194 -5.393 26.015 1 39.57 ? O3B ADP 501 A 1 
HETATM 5 P PA ADP . . . C 2 -15.749 -2.176 27.182 1 34.28 ? PA ADP 501 A 1 
HETATM 6 O O1A ADP . . . C 2 -14.937 -0.969 26.854 1 35.46 ? O1A ADP 501 A 1 
HETATM 7 O O2A ADP . . . C 2 -16.782 -2.588 26.213 1 37.14 ? O2A ADP 501 A 1 
HETATM 8 O O3A ADP . . . C 2 -14.839 -3.519 27.493 1 36.53 ? O3A ADP 501 A 1 
HETATM 9 O O5' ADP . . . C 2 -16.331 -1.871 28.597 1 39.18 ? O5' ADP 501 A 1 
HETATM 10 C C5' ADP . . . C 2 -17.199 -2.827 29.26 1 38.28 ? C5' ADP 501 A 1 
HETATM 11 C C4' ADP . . . C 2 -18.468 -2.182 29.782 1 38.93 ? C4' ADP 501 A 1 
HETATM 12 O O4' ADP . . . C 2 -18.216 -1.651 31.124 1 38.69 ? O4' ADP 501 A 1 
HETATM 13 C C3' ADP . . . C 2 -19.05 -0.961 29.006 1 40.3 ? C3' ADP 501 A 1 
HETATM 14 O O3' ADP . . . C 2 -20.069 -1.39 28.076 1 39.14 ? O3' ADP 501 A 1 
HETATM 15 C C2' ADP . . . C 2 -19.515 -0.068 30.104 1 40.12 ? C2' ADP 501 A 1 
HETATM 16 O O2' ADP . . . C 2 -20.864 -0.43 30.503 1 38.98 ? O2' ADP 501 A 1 
HETATM 17 C C1' ADP . . . C 2 -18.585 -0.267 31.253 1 39.64 ? C1' ADP 501 A 1 
HETATM 18 N N9 ADP . . . C 2 -17.294 0.537 31.342 1 40.34 ? N9 ADP 501 A 1 
HETATM 19 C C8 ADP . . . C 2 -16.015 0.331 30.832 1 39.86 ? C8 ADP 501 A 1 
HETATM 20 N N7 ADP . . . C 2 -15.138 1.253 31.132 1 40.22 ? N7 ADP 501 A 1 
HETATM 21 C C5 ADP . . . C 2 -15.883 2.129 31.897 1 38.37 ? C5 ADP 501 A 1 
HETATM 22 C C6 ADP . . . C 2 -15.579 3.373 32.569 1 38.05 ? C6 ADP 501 A 1 
HETATM 23 N N6 ADP . . . C 2 -14.344 3.893 32.534 1 34.12 ? N6 ADP 501 A 1 
HETATM 24 N N1 ADP . . . C 2 -16.592 4.032 33.274 1 38.07 ? N1 ADP 501 A 1 
HETATM 25 C C2 ADP . . . C 2 -17.859 3.518 33.329 1 39.25 ? C2 ADP 501 A 1 
HETATM 26 N N3 ADP . . . C 2 -18.273 2.337 32.731 1 39.16 ? N3 ADP 501 A 1 
HETATM 27 C C4 ADP . . . C 2 -17.221 1.702 32.025 1 39.53 ? C4 ADP 501 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           269 
_model_server_stats.encode_time_ms          10 
_model_server_stats.element_count           27 
#