data_3VX3
#
_model_server_result.job_id            5Ro-0xU-LtSKvDxk09xitQ 
_model_server_result.datetime_utc      '2024-11-28 07:54:54' 
_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          3vx3 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":301}' 
#
_entry.id    3VX3 
#
_exptl.entry_id    3VX3 
_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          90 
_cell.angle_gamma         90 
_cell.entry_id            3VX3 
_cell.length_a            66.241 
_cell.length_b            137.689 
_cell.length_c            150.821 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3VX3 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        23 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'I 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,D,E,F,G,H,I,J,K,L 
_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 
#
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 G N N 
#
_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                     3VX3 
_atom_sites.fract_transf_matrix[1][1]    0.015096 
_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]    0.007263 
_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]    0.00663 
_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 1 301 1 ADP ADP . 
D 3 EDO A 1 302 2 EDO EDO . 
E 3 EDO A 1 303 3 EDO EDO . 
F 3 EDO A 1 304 6 EDO EDO . 
G 2 ADP B 1 301 1 ADP ADP . 
H 3 EDO B 1 302 1 EDO EDO . 
I 3 EDO B 1 303 4 EDO EDO . 
J 3 EDO B 1 304 5 EDO EDO . 
K 4 HOH A 1 401 4 HOH HOH . 
K 4 HOH A 2 402 9 HOH HOH . 
K 4 HOH A 3 403 11 HOH HOH . 
K 4 HOH A 4 404 13 HOH HOH . 
K 4 HOH A 5 405 14 HOH HOH . 
K 4 HOH A 6 406 16 HOH HOH . 
K 4 HOH A 7 407 21 HOH HOH . 
K 4 HOH A 8 408 26 HOH HOH . 
K 4 HOH A 9 409 27 HOH HOH . 
K 4 HOH A 10 410 36 HOH HOH . 
K 4 HOH A 11 411 37 HOH HOH . 
K 4 HOH A 12 412 45 HOH HOH . 
K 4 HOH A 13 413 46 HOH HOH . 
K 4 HOH A 14 414 49 HOH HOH . 
K 4 HOH A 15 415 50 HOH HOH . 
K 4 HOH A 16 416 52 HOH HOH . 
K 4 HOH A 17 417 55 HOH HOH . 
K 4 HOH A 18 418 61 HOH HOH . 
K 4 HOH A 19 419 63 HOH HOH . 
K 4 HOH A 20 420 67 HOH HOH . 
K 4 HOH A 21 421 68 HOH HOH . 
K 4 HOH A 22 422 97 HOH HOH . 
K 4 HOH A 23 423 1025 HOH HOH . 
K 4 HOH A 24 424 1033 HOH HOH . 
K 4 HOH A 25 425 1053 HOH HOH . 
K 4 HOH A 26 426 1057 HOH HOH . 
K 4 HOH A 27 427 1080 HOH HOH . 
K 4 HOH A 28 428 1091 HOH HOH . 
K 4 HOH A 29 429 2011 HOH HOH . 
K 4 HOH A 30 430 2022 HOH HOH . 
K 4 HOH A 31 431 2059 HOH HOH . 
K 4 HOH A 32 432 2070 HOH HOH . 
K 4 HOH A 33 433 2071 HOH HOH . 
K 4 HOH A 34 434 2081 HOH HOH . 
K 4 HOH A 35 435 3034 HOH HOH . 
K 4 HOH A 36 436 3060 HOH HOH . 
K 4 HOH A 37 437 3074 HOH HOH . 
K 4 HOH A 38 438 3083 HOH HOH . 
K 4 HOH A 39 439 3096 HOH HOH . 
K 4 HOH A 40 440 3103 HOH HOH . 
K 4 HOH A 41 441 3105 HOH HOH . 
K 4 HOH A 42 442 3108 HOH HOH . 
K 4 HOH A 43 443 3109 HOH HOH . 
K 4 HOH A 44 444 3115 HOH HOH . 
K 4 HOH A 45 445 4017 HOH HOH . 
K 4 HOH A 46 446 4026 HOH HOH . 
K 4 HOH A 47 447 4035 HOH HOH . 
K 4 HOH A 48 448 4037 HOH HOH . 
K 4 HOH A 49 449 4040 HOH HOH . 
K 4 HOH A 50 450 5010 HOH HOH . 
K 4 HOH A 51 451 5026 HOH HOH . 
K 4 HOH A 52 452 5028 HOH HOH . 
K 4 HOH A 53 453 5031 HOH HOH . 
K 4 HOH A 54 454 5037 HOH HOH . 
K 4 HOH A 55 455 5047 HOH HOH . 
K 4 HOH A 56 456 5048 HOH HOH . 
K 4 HOH A 57 457 5066 HOH HOH . 
K 4 HOH A 58 458 5068 HOH HOH . 
K 4 HOH A 59 459 5074 HOH HOH . 
K 4 HOH A 60 460 5075 HOH HOH . 
K 4 HOH A 61 461 5083 HOH HOH . 
K 4 HOH A 62 462 5084 HOH HOH . 
K 4 HOH A 63 463 5085 HOH HOH . 
K 4 HOH A 64 464 6080 HOH HOH . 
K 4 HOH A 65 465 6081 HOH HOH . 
K 4 HOH A 66 466 6082 HOH HOH . 
K 4 HOH A 67 467 6083 HOH HOH . 
K 4 HOH A 68 468 6084 HOH HOH . 
K 4 HOH A 69 469 6085 HOH HOH . 
K 4 HOH A 70 470 6086 HOH HOH . 
K 4 HOH A 71 471 10 HOH HOH . 
K 4 HOH A 72 472 15 HOH HOH . 
K 4 HOH A 73 473 18 HOH HOH . 
K 4 HOH A 74 474 22 HOH HOH . 
K 4 HOH A 75 475 25 HOH HOH . 
K 4 HOH A 76 476 26 HOH HOH . 
K 4 HOH A 77 477 27 HOH HOH . 
K 4 HOH A 78 478 29 HOH HOH . 
K 4 HOH A 79 479 31 HOH HOH . 
K 4 HOH A 80 480 39 HOH HOH . 
K 4 HOH A 81 481 41 HOH HOH . 
K 4 HOH A 82 482 44 HOH HOH . 
K 4 HOH A 83 483 51 HOH HOH . 
K 4 HOH A 84 484 57 HOH HOH . 
K 4 HOH A 85 485 64 HOH HOH . 
K 4 HOH A 86 486 72 HOH HOH . 
K 4 HOH A 87 487 73 HOH HOH . 
K 4 HOH A 88 488 88 HOH HOH . 
K 4 HOH A 89 489 89 HOH HOH . 
K 4 HOH A 90 490 95 HOH HOH . 
L 4 HOH B 1 401 10 HOH HOH . 
L 4 HOH B 2 402 12 HOH HOH . 
L 4 HOH B 3 403 17 HOH HOH . 
L 4 HOH B 4 404 18 HOH HOH . 
L 4 HOH B 5 405 22 HOH HOH . 
L 4 HOH B 6 406 24 HOH HOH . 
L 4 HOH B 7 407 31 HOH HOH . 
L 4 HOH B 8 408 48 HOH HOH . 
L 4 HOH B 9 409 60 HOH HOH . 
L 4 HOH B 10 410 69 HOH HOH . 
L 4 HOH B 11 411 88 HOH HOH . 
L 4 HOH B 12 412 92 HOH HOH . 
L 4 HOH B 13 413 95 HOH HOH . 
L 4 HOH B 14 414 1013 HOH HOH . 
L 4 HOH B 15 415 1022 HOH HOH . 
L 4 HOH B 16 416 1031 HOH HOH . 
L 4 HOH B 17 417 1035 HOH HOH . 
L 4 HOH B 18 418 1036 HOH HOH . 
L 4 HOH B 19 419 1043 HOH HOH . 
L 4 HOH B 20 420 1051 HOH HOH . 
L 4 HOH B 21 421 1056 HOH HOH . 
L 4 HOH B 22 422 1079 HOH HOH . 
L 4 HOH B 23 423 1087 HOH HOH . 
L 4 HOH B 24 424 1088 HOH HOH . 
L 4 HOH B 25 425 2018 HOH HOH . 
L 4 HOH B 26 426 2031 HOH HOH . 
L 4 HOH B 27 427 2044 HOH HOH . 
L 4 HOH B 28 428 2046 HOH HOH . 
L 4 HOH B 29 429 2069 HOH HOH . 
L 4 HOH B 30 430 2075 HOH HOH . 
L 4 HOH B 31 431 2082 HOH HOH . 
L 4 HOH B 32 432 2085 HOH HOH . 
L 4 HOH B 33 433 3065 HOH HOH . 
L 4 HOH B 34 434 3066 HOH HOH . 
L 4 HOH B 35 435 3067 HOH HOH . 
L 4 HOH B 36 436 3084 HOH HOH . 
L 4 HOH B 37 437 3089 HOH HOH . 
L 4 HOH B 38 438 3091 HOH HOH . 
L 4 HOH B 39 439 3093 HOH HOH . 
L 4 HOH B 40 440 3101 HOH HOH . 
L 4 HOH B 41 441 3104 HOH HOH . 
L 4 HOH B 42 442 4024 HOH HOH . 
L 4 HOH B 43 443 4038 HOH HOH . 
L 4 HOH B 44 444 4047 HOH HOH . 
L 4 HOH B 45 445 4048 HOH HOH . 
L 4 HOH B 46 446 5018 HOH HOH . 
L 4 HOH B 47 447 5020 HOH HOH . 
L 4 HOH B 48 448 5023 HOH HOH . 
L 4 HOH B 49 449 5025 HOH HOH . 
L 4 HOH B 50 450 5035 HOH HOH . 
L 4 HOH B 51 451 5041 HOH HOH . 
L 4 HOH B 52 452 5042 HOH HOH . 
L 4 HOH B 53 453 5046 HOH HOH . 
L 4 HOH B 54 454 5051 HOH HOH . 
L 4 HOH B 55 455 5057 HOH HOH . 
L 4 HOH B 56 456 5065 HOH HOH . 
L 4 HOH B 57 457 5089 HOH HOH . 
L 4 HOH B 58 458 6021 HOH HOH . 
L 4 HOH B 59 459 14 HOH HOH . 
L 4 HOH B 60 460 16 HOH HOH . 
L 4 HOH B 61 461 17 HOH HOH . 
L 4 HOH B 62 462 23 HOH HOH . 
L 4 HOH B 63 463 24 HOH HOH . 
L 4 HOH B 64 464 40 HOH HOH . 
L 4 HOH B 65 465 42 HOH HOH . 
L 4 HOH B 66 466 45 HOH HOH . 
L 4 HOH B 67 467 47 HOH HOH . 
L 4 HOH B 68 468 48 HOH HOH . 
L 4 HOH B 69 469 50 HOH HOH . 
L 4 HOH B 70 470 58 HOH HOH . 
L 4 HOH B 71 471 59 HOH HOH . 
L 4 HOH B 72 472 62 HOH HOH . 
L 4 HOH B 73 473 63 HOH HOH . 
L 4 HOH B 74 474 65 HOH HOH . 
L 4 HOH B 75 475 71 HOH HOH . 
L 4 HOH B 76 476 74 HOH HOH . 
L 4 HOH B 77 477 75 HOH HOH . 
L 4 HOH B 78 478 76 HOH HOH . 
L 4 HOH B 79 479 78 HOH HOH . 
L 4 HOH B 80 480 80 HOH HOH . 
L 4 HOH B 81 481 81 HOH HOH . 
L 4 HOH B 82 482 82 HOH HOH . 
L 4 HOH B 83 483 84 HOH HOH . 
L 4 HOH B 84 484 85 HOH HOH . 
L 4 HOH B 85 485 96 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 PB ADP . . . G 2 -30.32 -22.207 -28.053 1 22.14 ? PB ADP 301 B 1 
HETATM 2 O O1B ADP . . . G 2 -30.442 -23.232 -26.984 1 18.49 ? O1B ADP 301 B 1 
HETATM 3 O O2B ADP . . . G 2 -31.558 -21.733 -28.762 1 21.94 ? O2B ADP 301 B 1 
HETATM 4 O O3B ADP . . . G 2 -29.381 -21.096 -27.557 1 21.58 ? O3B ADP 301 B 1 
HETATM 5 P PA ADP . . . G 2 -29.653 -22.899 -30.855 1 27.23 ? PA ADP 301 B 1 
HETATM 6 O O1A ADP . . . G 2 -29.281 -21.607 -31.495 1 28.36 ? O1A ADP 301 B 1 
HETATM 7 O O2A ADP . . . G 2 -30.957 -23.542 -31.271 1 29.07 ? O2A ADP 301 B 1 
HETATM 8 O O3A ADP . . . G 2 -29.485 -23.006 -29.22 1 25.84 ? O3A ADP 301 B 1 
HETATM 9 O O5' ADP . . . G 2 -28.438 -23.952 -31.215 1 31.85 ? O5' ADP 301 B 1 
HETATM 10 C C5' ADP . . . G 2 -27.035 -23.682 -31.025 1 30.76 ? C5' ADP 301 B 1 
HETATM 11 C C4' ADP . . . G 2 -26.28 -23.931 -32.338 1 32.85 ? C4' ADP 301 B 1 
HETATM 12 O O4' ADP . . . G 2 -26.093 -25.365 -32.513 1 31.94 ? O4' ADP 301 B 1 
HETATM 13 C C3' ADP . . . G 2 -27.125 -23.48 -33.513 1 32.42 ? C3' ADP 301 B 1 
HETATM 14 O O3' ADP . . . G 2 -26.313 -22.9 -34.536 1 32.99 ? O3' ADP 301 B 1 
HETATM 15 C C2' ADP . . . G 2 -27.775 -24.751 -34.046 1 32.95 ? C2' ADP 301 B 1 
HETATM 16 O O2' ADP . . . G 2 -27.965 -24.637 -35.454 1 34.99 ? O2' ADP 301 B 1 
HETATM 17 C C1' ADP . . . G 2 -26.76 -25.812 -33.706 1 30.23 ? C1' ADP 301 B 1 
HETATM 18 N N9 ADP . . . G 2 -27.3 -27.135 -33.306 1 30 ? N9 ADP 301 B 1 
HETATM 19 C C8 ADP . . . G 2 -28.364 -27.394 -32.529 1 29.03 ? C8 ADP 301 B 1 
HETATM 20 N N7 ADP . . . G 2 -28.494 -28.728 -32.307 1 28.82 ? N7 ADP 301 B 1 
HETATM 21 C C5 ADP . . . G 2 -27.484 -29.341 -32.97 1 29.36 ? C5 ADP 301 B 1 
HETATM 22 C C6 ADP . . . G 2 -27.033 -30.729 -33.197 1 25.48 ? C6 ADP 301 B 1 
HETATM 23 N N6 ADP . . . G 2 -27.674 -31.766 -32.649 1 22.29 ? N6 ADP 301 B 1 
HETATM 24 N N1 ADP . . . G 2 -25.921 -30.918 -33.931 1 27.21 ? N1 ADP 301 B 1 
HETATM 25 C C2 ADP . . . G 2 -25.243 -29.901 -34.497 1 27.52 ? C2 ADP 301 B 1 
HETATM 26 N N3 ADP . . . G 2 -25.592 -28.61 -34.339 1 28.59 ? N3 ADP 301 B 1 
HETATM 27 C C4 ADP . . . G 2 -26.693 -28.282 -33.61 1 27.76 ? C4 ADP 301 B 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    23 
_model_server_stats.query_time_ms           302 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           27 
#