data_4LYA
#
_model_server_result.job_id            smH-kYNoXLAvSpKGUjJ0aw 
_model_server_result.datetime_utc      '2024-10-27 12:38:43' 
_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          4lya 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":1503}' 
#
_entry.id    4LYA 
#
_exptl.entry_id    4LYA 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              507.181 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-TRIPHOSPHATE" 
_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          107.47 
_cell.angle_gamma         90 
_cell.entry_id            4LYA 
_cell.length_a            52.346 
_cell.length_b            62.971 
_cell.length_c            83.888 
_cell.Z_PDB               2 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4LYA 
_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,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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 3 C N N 
? 3 D 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 C THR 90 A THR 1010 1_555 A N MSE 91 A MSE 1011 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale2 A C MSE 91 A MSE 1011 1_555 A N MSE 92 A MSE 1012 1_555 ? ? ? ? A ? ? ? ? ? ? ? 1.329 ? 
covale ? covale3 A C MSE 91 A MSE 1011 1_555 A N MSE 92 A MSE 1012 1_555 ? ? ? ? B ? ? ? ? ? ? ? 1.331 ? 
covale ? covale4 A C MSE 92 A MSE 1012 1_555 A N THR 93 A THR 1013 1_555 ? A ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale5 A C MSE 92 A MSE 1012 1_555 A N THR 93 A THR 1013 1_555 ? B ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale6 A C PHE 146 A PHE 1066 1_555 A N MSE 147 A MSE 1067 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale7 A C MSE 147 A MSE 1067 1_555 A N LYS 148 A LYS 1068 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale8 A C GLU 150 A GLU 1070 1_555 A N MSE 151 A MSE 1071 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale9 A C MSE 151 A MSE 1071 1_555 A N GLU 152 A GLU 1072 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale10 A C PHE 158 A PHE 1078 1_555 A N MSE 159 A MSE 1079 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale11 A C MSE 159 A MSE 1079 1_555 A N GLU 160 A GLU 1080 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale12 A C GLU 193 A GLU 1113 1_555 A N MSE 194 A MSE 1114 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale13 A C MSE 194 A MSE 1114 1_555 A N PRO 195 A PRO 1115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.343 ? 
covale ? covale14 A C ILE 216 A ILE 1136 1_555 A N MSE 217 A MSE 1137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale15 A C MSE 217 A MSE 1137 1_555 A N THR 218 A THR 1138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale16 A C LEU 229 A LEU 1149 1_555 A N MSE 230 A MSE 1150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale17 A C MSE 230 A MSE 1150 1_555 A N ASN 231 A ASN 1151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale18 A C GLU 296 A GLU 1216 1_555 A N MSE 297 A MSE 1217 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale19 A C MSE 297 A MSE 1217 1_555 A N GLU 298 A GLU 1218 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale20 A C PRO 314 A PRO 1234 1_555 A N MSE 315 A MSE 1235 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale21 A C MSE 315 A MSE 1235 1_555 A N LEU 316 A LEU 1236 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale22 A C SER 321 A SER 1241 1_555 A N MSE 322 A MSE 1242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale23 A C MSE 322 A MSE 1242 1_555 A N SER 323 A SER 1243 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale24 A C ASN 353 A ASN 1273 1_555 A N MSE 354 A MSE 1274 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale25 A C MSE 354 A MSE 1274 1_555 A N ARG 355 A ARG 1275 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale26 A C ILE 469 A ILE 1389 1_555 A N MSE 470 A MSE 1390 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale27 A C MSE 470 A MSE 1390 1_555 A N GLN 471 A GLN 1391 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale28 A C ASN 476 A ASN 1396 1_555 A N MSE 477 A MSE 1397 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale29 A C MSE 477 A MSE 1397 1_555 A N MSE 478 A MSE 1398 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale30 A C MSE 478 A MSE 1398 1_555 A N LYS 479 A LYS 1399 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
metalc ? metalc1 A OG1 THR 371 A THR 1291 1_555 B MG MG . A MG 1501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.37 ? 
metalc ? metalc2 B MG MG . A MG 1501 1_555 D O1G ATP . A ATP 1503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.65 ? 
metalc ? metalc3 B MG MG . A MG 1501 1_555 E O HOH . A HOH 1658 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.758 ? 
metalc ? metalc4 B MG MG . A MG 1501 1_555 D O1B ATP . A ATP 1503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.801 ? 
#
_chem_comp.formula           'C10 H16 N5 O13 P3' 
_chem_comp.formula_weight    507.181 
_chem_comp.id                ATP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "ADENOSINE-5'-TRIPHOSPHATE" 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
_atom_sites.entry_id                     4LYA 
_atom_sites.fract_transf_matrix[1][1]    0.019104 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.006011 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.01588 
_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]    0.012497 
_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 1501 1 MG MG . 
C 3 ATP A 1 1502 1 ATP ATP . 
D 3 ATP A 1 1503 2 ATP ATP . 
E 4 HOH A 1 1601 1 HOH HOH . 
E 4 HOH A 2 1602 2 HOH HOH . 
E 4 HOH A 3 1603 3 HOH HOH . 
E 4 HOH A 4 1604 4 HOH HOH . 
E 4 HOH A 5 1605 5 HOH HOH . 
E 4 HOH A 6 1606 6 HOH HOH . 
E 4 HOH A 7 1607 7 HOH HOH . 
E 4 HOH A 8 1608 8 HOH HOH . 
E 4 HOH A 9 1609 9 HOH HOH . 
E 4 HOH A 10 1610 11 HOH HOH . 
E 4 HOH A 11 1611 12 HOH HOH . 
E 4 HOH A 12 1612 13 HOH HOH . 
E 4 HOH A 13 1613 14 HOH HOH . 
E 4 HOH A 14 1614 15 HOH HOH . 
E 4 HOH A 15 1615 16 HOH HOH . 
E 4 HOH A 16 1616 19 HOH HOH . 
E 4 HOH A 17 1617 21 HOH HOH . 
E 4 HOH A 18 1618 23 HOH HOH . 
E 4 HOH A 19 1619 24 HOH HOH . 
E 4 HOH A 20 1620 25 HOH HOH . 
E 4 HOH A 21 1621 26 HOH HOH . 
E 4 HOH A 22 1622 27 HOH HOH . 
E 4 HOH A 23 1623 28 HOH HOH . 
E 4 HOH A 24 1624 29 HOH HOH . 
E 4 HOH A 25 1625 30 HOH HOH . 
E 4 HOH A 26 1626 31 HOH HOH . 
E 4 HOH A 27 1627 32 HOH HOH . 
E 4 HOH A 28 1628 33 HOH HOH . 
E 4 HOH A 29 1629 34 HOH HOH . 
E 4 HOH A 30 1630 35 HOH HOH . 
E 4 HOH A 31 1631 36 HOH HOH . 
E 4 HOH A 32 1632 38 HOH HOH . 
E 4 HOH A 33 1633 39 HOH HOH . 
E 4 HOH A 34 1634 41 HOH HOH . 
E 4 HOH A 35 1635 42 HOH HOH . 
E 4 HOH A 36 1636 44 HOH HOH . 
E 4 HOH A 37 1637 47 HOH HOH . 
E 4 HOH A 38 1638 50 HOH HOH . 
E 4 HOH A 39 1639 51 HOH HOH . 
E 4 HOH A 40 1640 53 HOH HOH . 
E 4 HOH A 41 1641 55 HOH HOH . 
E 4 HOH A 42 1642 56 HOH HOH . 
E 4 HOH A 43 1643 57 HOH HOH . 
E 4 HOH A 44 1644 58 HOH HOH . 
E 4 HOH A 45 1645 59 HOH HOH . 
E 4 HOH A 46 1646 62 HOH HOH . 
E 4 HOH A 47 1647 63 HOH HOH . 
E 4 HOH A 48 1648 64 HOH HOH . 
E 4 HOH A 49 1649 67 HOH HOH . 
E 4 HOH A 50 1650 69 HOH HOH . 
E 4 HOH A 51 1651 70 HOH HOH . 
E 4 HOH A 52 1652 71 HOH HOH . 
E 4 HOH A 53 1653 72 HOH HOH . 
E 4 HOH A 54 1654 73 HOH HOH . 
E 4 HOH A 55 1655 75 HOH HOH . 
E 4 HOH A 56 1656 76 HOH HOH . 
E 4 HOH A 57 1657 77 HOH HOH . 
E 4 HOH A 58 1658 78 HOH HOH . 
E 4 HOH A 59 1659 79 HOH HOH . 
E 4 HOH A 60 1660 80 HOH HOH . 
E 4 HOH A 61 1661 81 HOH HOH . 
E 4 HOH A 62 1662 82 HOH HOH . 
E 4 HOH A 63 1663 83 HOH HOH . 
E 4 HOH A 64 1664 86 HOH HOH . 
E 4 HOH A 65 1665 87 HOH HOH . 
E 4 HOH A 66 1666 88 HOH HOH . 
E 4 HOH A 67 1667 91 HOH HOH . 
E 4 HOH A 68 1668 92 HOH HOH . 
E 4 HOH A 69 1669 93 HOH HOH . 
E 4 HOH A 70 1670 94 HOH HOH . 
E 4 HOH A 71 1671 95 HOH HOH . 
E 4 HOH A 72 1672 96 HOH HOH . 
E 4 HOH A 73 1673 97 HOH HOH . 
E 4 HOH A 74 1674 98 HOH HOH . 
E 4 HOH A 75 1675 99 HOH HOH . 
E 4 HOH A 76 1676 100 HOH HOH . 
E 4 HOH A 77 1677 101 HOH HOH . 
E 4 HOH A 78 1678 103 HOH HOH . 
E 4 HOH A 79 1679 104 HOH HOH . 
E 4 HOH A 80 1680 114 HOH HOH . 
E 4 HOH A 81 1681 116 HOH HOH . 
E 4 HOH A 82 1682 117 HOH HOH . 
E 4 HOH A 83 1683 118 HOH HOH . 
E 4 HOH A 84 1684 119 HOH HOH . 
E 4 HOH A 85 1685 121 HOH HOH . 
E 4 HOH A 86 1686 122 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 PG ATP . . . D 3 -35.355 -10.393 20.731 1 22.08 ? PG ATP 1503 A 1 
HETATM 2 O O1G ATP . . . D 3 -36.54 -9.744 21.388 1 38.75 ? O1G ATP 1503 A 1 
HETATM 3 O O2G ATP . . . D 3 -34.753 -11.482 21.578 1 35.43 1 O2G ATP 1503 A 1 
HETATM 4 O O3G ATP . . . D 3 -35.562 -10.717 19.271 1 16.7 ? O3G ATP 1503 A 1 
HETATM 5 P PB ATP . . . D 3 -34.008 -8.248 21.953 1 19.59 ? PB ATP 1503 A 1 
HETATM 6 O O1B ATP . . . D 3 -34.639 -8.829 23.187 1 37.68 1 O1B ATP 1503 A 1 
HETATM 7 O O2B ATP . . . D 3 -34.407 -6.873 21.501 1 16.48 ? O2B ATP 1503 A 1 
HETATM 8 O O3B ATP . . . D 3 -34.219 -9.256 20.717 1 38.05 ? O3B ATP 1503 A 1 
HETATM 9 P PA ATP . . . D 3 -31.697 -7.441 23.318 1 23.06 ? PA ATP 1503 A 1 
HETATM 10 O O1A ATP . . . D 3 -31.287 -6.111 22.759 1 58.29 1 O1A ATP 1503 A 1 
HETATM 11 O O2A ATP . . . D 3 -32.584 -7.498 24.532 1 24.33 ? O2A ATP 1503 A 1 
HETATM 12 O O3A ATP . . . D 3 -32.41 -8.256 22.13 1 26.01 ? O3A ATP 1503 A 1 
HETATM 13 O O5' ATP . . . D 3 -30.33 -8.226 23.605 1 44.65 ? O5' ATP 1503 A 1 
HETATM 14 C C5' ATP . . . D 3 -29.551 -8.784 22.559 1 35.31 ? C5' ATP 1503 A 1 
HETATM 15 C C4' ATP . . . D 3 -28.132 -8.299 22.78 1 24.4 ? C4' ATP 1503 A 1 
HETATM 16 O O4' ATP . . . D 3 -28.062 -6.904 22.501 1 25.17 ? O4' ATP 1503 A 1 
HETATM 17 C C3' ATP . . . D 3 -27.71 -8.487 24.224 1 23.46 ? C3' ATP 1503 A 1 
HETATM 18 O O3' ATP . . . D 3 -26.613 -9.401 24.29 1 30.81 ? O3' ATP 1503 A 1 
HETATM 19 C C2' ATP . . . D 3 -27.275 -7.126 24.719 1 21.29 ? C2' ATP 1503 A 1 
HETATM 20 O O2' ATP . . . D 3 -25.956 -7.217 25.26 1 52.03 ? O2' ATP 1503 A 1 
HETATM 21 C C1' ATP . . . D 3 -27.289 -6.229 23.494 1 27.19 ? C1' ATP 1503 A 1 
HETATM 22 N N9 ATP . . . D 3 -27.885 -4.912 23.832 1 29.71 ? N9 ATP 1503 A 1 
HETATM 23 C C8 ATP . . . D 3 -29.198 -4.672 23.967 1 21.31 ? C8 ATP 1503 A 1 
HETATM 24 N N7 ATP . . . D 3 -29.438 -3.376 24.284 1 12.64 ? N7 ATP 1503 A 1 
HETATM 25 C C5 ATP . . . D 3 -28.25 -2.755 24.364 1 18.65 ? C5 ATP 1503 A 1 
HETATM 26 C C6 ATP . . . D 3 -27.784 -1.38 24.655 1 16.5 ? C6 ATP 1503 A 1 
HETATM 27 N N6 ATP . . . D 3 -28.668 -0.396 24.94 1 19.27 ? N6 ATP 1503 A 1 
HETATM 28 N N1 ATP . . . D 3 -26.453 -1.149 24.63 1 14.71 ? N1 ATP 1503 A 1 
HETATM 29 C C2 ATP . . . D 3 -25.572 -2.129 24.351 1 25.1 ? C2 ATP 1503 A 1 
HETATM 30 N N3 ATP . . . D 3 -25.923 -3.398 24.074 1 18.47 ? N3 ATP 1503 A 1 
HETATM 31 C C4 ATP . . . D 3 -27.227 -3.771 24.067 1 27.27 ? C4 ATP 1503 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           355 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           31 
#