data_4XD8
#
_model_server_result.job_id            NDawRQdC50zjDRN7moI1wQ 
_model_server_result.datetime_utc      '2024-11-12 20:38:19' 
_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          4xd8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":302}' 
#
_entry.id    4XD8 
#
_exptl.entry_id    4XD8 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              506.196 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' 
_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          107.55 
_cell.angle_gamma         90 
_cell.entry_id            4XD8 
_cell.length_a            41.49 
_cell.length_b            45.75 
_cell.length_c            59.85 
_cell.Z_PDB               2 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4XD8 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_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 
_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 OD1 ASN 76 A ASN 40 1_555 B MG MG . A MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? 
metalc ? metalc2 B MG MG . A MG 301 1_555 C O1B ANP . A ANP 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.989 ? 
metalc ? metalc3 B MG MG . A MG 301 1_555 C O2A ANP . A ANP 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? 
metalc ? metalc4 B MG MG . A MG 301 1_555 D O HOH . A HOH 451 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? 
metalc ? metalc5 B MG MG . A MG 301 1_555 D O HOH . A HOH 463 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.298 ? 
metalc ? metalc6 B MG MG . A MG 301 1_555 D O HOH . A HOH 515 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.135 ? 
#
_chem_comp.formula           'C10 H17 N6 O12 P3' 
_chem_comp.formula_weight    506.196 
_chem_comp.id                ANP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' 
_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
PG O1G ANP doub 13 n n 
PG O2G ANP sing 14 n n 
PG O3G ANP sing 15 n n 
PG N3B ANP sing 16 n n 
O2G HOG2 ANP sing 17 n n 
O3G HOG3 ANP sing 18 n n 
PB O1B ANP doub 19 n n 
PB O2B ANP sing 20 n n 
PB N3B ANP sing 21 n n 
PB O3A ANP sing 22 n n 
O2B HOB2 ANP sing 23 n n 
N3B HNB1 ANP sing 24 n n 
PA O1A ANP doub 25 n n 
PA O2A ANP sing 26 n n 
PA O3A ANP sing 27 n n 
PA O5' ANP sing 28 n n 
O2A HOA2 ANP sing 29 n n 
O5' C5' ANP sing 30 n n 
C5' C4' ANP sing 31 n n 
C5' "H5'1" ANP sing 32 n n 
C5' "H5'2" ANP sing 33 n n 
C4' O4' ANP sing 34 n n 
C4' C3' ANP sing 35 n n 
C4' H4' ANP sing 36 n n 
O4' C1' ANP sing 37 n n 
C3' O3' ANP sing 38 n n 
C3' C2' ANP sing 39 n n 
C3' H3' ANP sing 40 n n 
O3' HO3' ANP sing 41 n n 
C2' O2' ANP sing 42 n n 
C2' C1' ANP sing 43 n n 
C2' H2' ANP sing 44 n n 
O2' HO2' ANP sing 45 n n 
C1' N9 ANP sing 46 n n 
C1' H1' ANP sing 47 n n 
N9 C8 ANP sing 48 n y 
N9 C4 ANP sing 49 n y 
C8 N7 ANP doub 50 n y 
C8 H8 ANP sing 51 n n 
N7 C5 ANP sing 52 n y 
C5 C6 ANP sing 53 n y 
C5 C4 ANP doub 54 n y 
C6 N6 ANP sing 55 n n 
C6 N1 ANP doub 56 n y 
N6 HN61 ANP sing 57 n n 
N6 HN62 ANP sing 58 n n 
N1 C2 ANP sing 59 n y 
C2 N3 ANP doub 60 n y 
C2 H2 ANP sing 61 n n 
N3 C4 ANP sing 62 n y 
#
_atom_sites.entry_id                     4XD8 
_atom_sites.fract_transf_matrix[1][1]    0.024102 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.007623 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.021858 
_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]    0.017524 
_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 MG A 1 301 1 MG MG . 
C 3 ANP A 1 302 1 ANP ANP . 
D 4 HOH A 1 401 108 HOH HOH . 
D 4 HOH A 2 402 93 HOH HOH . 
D 4 HOH A 3 403 146 HOH HOH . 
D 4 HOH A 4 404 95 HOH HOH . 
D 4 HOH A 5 405 56 HOH HOH . 
D 4 HOH A 6 406 41 HOH HOH . 
D 4 HOH A 7 407 154 HOH HOH . 
D 4 HOH A 8 408 100 HOH HOH . 
D 4 HOH A 9 409 152 HOH HOH . 
D 4 HOH A 10 410 162 HOH HOH . 
D 4 HOH A 11 411 143 HOH HOH . 
D 4 HOH A 12 412 86 HOH HOH . 
D 4 HOH A 13 413 54 HOH HOH . 
D 4 HOH A 14 414 15 HOH HOH . 
D 4 HOH A 15 415 135 HOH HOH . 
D 4 HOH A 16 416 109 HOH HOH . 
D 4 HOH A 17 417 62 HOH HOH . 
D 4 HOH A 18 418 18 HOH HOH . 
D 4 HOH A 19 419 83 HOH HOH . 
D 4 HOH A 20 420 30 HOH HOH . 
D 4 HOH A 21 421 107 HOH HOH . 
D 4 HOH A 22 422 60 HOH HOH . 
D 4 HOH A 23 423 64 HOH HOH . 
D 4 HOH A 24 424 22 HOH HOH . 
D 4 HOH A 25 425 87 HOH HOH . 
D 4 HOH A 26 426 43 HOH HOH . 
D 4 HOH A 27 427 105 HOH HOH . 
D 4 HOH A 28 428 24 HOH HOH . 
D 4 HOH A 29 429 130 HOH HOH . 
D 4 HOH A 30 430 158 HOH HOH . 
D 4 HOH A 31 431 61 HOH HOH . 
D 4 HOH A 32 432 16 HOH HOH . 
D 4 HOH A 33 433 102 HOH HOH . 
D 4 HOH A 34 434 82 HOH HOH . 
D 4 HOH A 35 435 132 HOH HOH . 
D 4 HOH A 36 436 136 HOH HOH . 
D 4 HOH A 37 437 101 HOH HOH . 
D 4 HOH A 38 438 2 HOH HOH . 
D 4 HOH A 39 439 3 HOH HOH . 
D 4 HOH A 40 440 4 HOH HOH . 
D 4 HOH A 41 441 5 HOH HOH . 
D 4 HOH A 42 442 6 HOH HOH . 
D 4 HOH A 43 443 7 HOH HOH . 
D 4 HOH A 44 444 8 HOH HOH . 
D 4 HOH A 45 445 9 HOH HOH . 
D 4 HOH A 46 446 12 HOH HOH . 
D 4 HOH A 47 447 13 HOH HOH . 
D 4 HOH A 48 448 14 HOH HOH . 
D 4 HOH A 49 449 17 HOH HOH . 
D 4 HOH A 50 450 19 HOH HOH . 
D 4 HOH A 51 451 20 HOH HOH . 
D 4 HOH A 52 452 21 HOH HOH . 
D 4 HOH A 53 453 23 HOH HOH . 
D 4 HOH A 54 454 25 HOH HOH . 
D 4 HOH A 55 455 27 HOH HOH . 
D 4 HOH A 56 456 28 HOH HOH . 
D 4 HOH A 57 457 29 HOH HOH . 
D 4 HOH A 58 458 32 HOH HOH . 
D 4 HOH A 59 459 33 HOH HOH . 
D 4 HOH A 60 460 35 HOH HOH . 
D 4 HOH A 61 461 37 HOH HOH . 
D 4 HOH A 62 462 38 HOH HOH . 
D 4 HOH A 63 463 39 HOH HOH . 
D 4 HOH A 64 464 40 HOH HOH . 
D 4 HOH A 65 465 42 HOH HOH . 
D 4 HOH A 66 466 44 HOH HOH . 
D 4 HOH A 67 467 45 HOH HOH . 
D 4 HOH A 68 468 46 HOH HOH . 
D 4 HOH A 69 469 49 HOH HOH . 
D 4 HOH A 70 470 50 HOH HOH . 
D 4 HOH A 71 471 51 HOH HOH . 
D 4 HOH A 72 472 52 HOH HOH . 
D 4 HOH A 73 473 55 HOH HOH . 
D 4 HOH A 74 474 58 HOH HOH . 
D 4 HOH A 75 475 59 HOH HOH . 
D 4 HOH A 76 476 63 HOH HOH . 
D 4 HOH A 77 477 66 HOH HOH . 
D 4 HOH A 78 478 67 HOH HOH . 
D 4 HOH A 79 479 68 HOH HOH . 
D 4 HOH A 80 480 70 HOH HOH . 
D 4 HOH A 81 481 77 HOH HOH . 
D 4 HOH A 82 482 79 HOH HOH . 
D 4 HOH A 83 483 80 HOH HOH . 
D 4 HOH A 84 484 81 HOH HOH . 
D 4 HOH A 85 485 84 HOH HOH . 
D 4 HOH A 86 486 85 HOH HOH . 
D 4 HOH A 87 487 88 HOH HOH . 
D 4 HOH A 88 488 89 HOH HOH . 
D 4 HOH A 89 489 90 HOH HOH . 
D 4 HOH A 90 490 91 HOH HOH . 
D 4 HOH A 91 491 94 HOH HOH . 
D 4 HOH A 92 492 97 HOH HOH . 
D 4 HOH A 93 493 98 HOH HOH . 
D 4 HOH A 94 494 99 HOH HOH . 
D 4 HOH A 95 495 104 HOH HOH . 
D 4 HOH A 96 496 106 HOH HOH . 
D 4 HOH A 97 497 113 HOH HOH . 
D 4 HOH A 98 498 114 HOH HOH . 
D 4 HOH A 99 499 116 HOH HOH . 
D 4 HOH A 100 500 117 HOH HOH . 
D 4 HOH A 101 501 120 HOH HOH . 
D 4 HOH A 102 502 123 HOH HOH . 
D 4 HOH A 103 503 126 HOH HOH . 
D 4 HOH A 104 504 127 HOH HOH . 
D 4 HOH A 105 505 128 HOH HOH . 
D 4 HOH A 106 506 131 HOH HOH . 
D 4 HOH A 107 507 133 HOH HOH . 
D 4 HOH A 108 508 134 HOH HOH . 
D 4 HOH A 109 509 137 HOH HOH . 
D 4 HOH A 110 510 138 HOH HOH . 
D 4 HOH A 111 511 139 HOH HOH . 
D 4 HOH A 112 512 140 HOH HOH . 
D 4 HOH A 113 513 141 HOH HOH . 
D 4 HOH A 114 514 142 HOH HOH . 
D 4 HOH A 115 515 144 HOH HOH . 
D 4 HOH A 116 516 145 HOH HOH . 
D 4 HOH A 117 517 147 HOH HOH . 
D 4 HOH A 118 518 148 HOH HOH . 
D 4 HOH A 119 519 150 HOH HOH . 
D 4 HOH A 120 520 151 HOH HOH . 
D 4 HOH A 121 521 153 HOH HOH . 
D 4 HOH A 122 522 155 HOH HOH . 
D 4 HOH A 123 523 156 HOH HOH . 
D 4 HOH A 124 524 157 HOH HOH . 
D 4 HOH A 125 525 159 HOH HOH . 
D 4 HOH A 126 526 160 HOH HOH . 
D 4 HOH A 127 527 161 HOH HOH . 
D 4 HOH A 128 528 163 HOH HOH . 
D 4 HOH A 129 529 164 HOH HOH . 
D 4 HOH A 130 530 165 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 ANP . . . C 3 -6.345 11.26 22.916 1 19.62 ? PB ANP 302 A 1 
HETATM 2 O O1B ANP . . . C 3 -5.556 10.085 22.385 1 18.34 ? O1B ANP 302 A 1 
HETATM 3 O O2B ANP . . . C 3 -7.835 11.159 22.804 1 20.2 ? O2B ANP 302 A 1 
HETATM 4 N N3B ANP . . . C 3 -5.963 11.55 24.555 1 19.42 ? N3B ANP 302 A 1 
HETATM 5 P PA ANP . . . C 3 -5.022 12.788 20.835 1 16.2 ? PA ANP 302 A 1 
HETATM 6 O O1A ANP . . . C 3 -4.789 14.239 20.645 1 14.89 ? O1A ANP 302 A 1 
HETATM 7 O O2A ANP . . . C 3 -3.858 11.813 20.846 1 15.47 ? O2A ANP 302 A 1 
HETATM 8 O O3A ANP . . . C 3 -5.939 12.641 22.176 1 19.24 ? O3A ANP 302 A 1 
HETATM 9 O O5' ANP . . . C 3 -5.997 12.311 19.652 1 16.17 ? O5' ANP 302 A 1 
HETATM 10 C C5' ANP . . . C 3 -7.22 13.025 19.546 1 15.42 ? C5' ANP 302 A 1 
HETATM 11 C C4' ANP . . . C 3 -8.298 12.187 18.89 1 15.93 ? C4' ANP 302 A 1 
HETATM 12 O O4' ANP . . . C 3 -8.003 12.025 17.485 1 15.96 ? O4' ANP 302 A 1 
HETATM 13 C C3' ANP . . . C 3 -8.411 10.781 19.439 1 17.11 ? C3' ANP 302 A 1 
HETATM 14 O O3' ANP . . . C 3 -9.203 10.754 20.633 1 20.71 ? O3' ANP 302 A 1 
HETATM 15 C C2' ANP . . . C 3 -9.104 10.076 18.293 1 15.23 ? C2' ANP 302 A 1 
HETATM 16 O O2' ANP . . . C 3 -10.511 10.382 18.355 1 19.36 ? O2' ANP 302 A 1 
HETATM 17 C C1' ANP . . . C 3 -8.531 10.783 17.077 1 15.47 ? C1' ANP 302 A 1 
HETATM 18 N N9 ANP . . . C 3 -7.427 9.967 16.524 1 14.39 ? N9 ANP 302 A 1 
HETATM 19 C C8 ANP . . . C 3 -6.105 10.27 16.529 1 14.52 ? C8 ANP 302 A 1 
HETATM 20 N N7 ANP . . . C 3 -5.387 9.324 15.906 1 14.53 ? N7 ANP 302 A 1 
HETATM 21 C C5 ANP . . . C 3 -6.253 8.372 15.486 1 11.76 ? C5 ANP 302 A 1 
HETATM 22 C C6 ANP . . . C 3 -6.17 7.077 14.774 1 12.63 ? C6 ANP 302 A 1 
HETATM 23 N N6 ANP . . . C 3 -4.967 6.558 14.393 1 13.92 ? N6 ANP 302 A 1 
HETATM 24 N N1 ANP . . . C 3 -7.332 6.432 14.555 1 12.76 ? N1 ANP 302 A 1 
HETATM 25 C C2 ANP . . . C 3 -8.532 6.918 14.957 1 13.15 ? C2 ANP 302 A 1 
HETATM 26 N N3 ANP . . . C 3 -8.662 8.085 15.598 1 14.47 ? N3 ANP 302 A 1 
HETATM 27 C C4 ANP . . . C 3 -7.587 8.813 15.897 1 13.29 ? C4 ANP 302 A 1 
#
_model_server_stats.io_time_ms              30 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           323 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           27 
#