data_7KRT
#
_model_server_result.job_id            DXqkhsQaP8y14qNDfBu5Dw 
_model_server_result.datetime_utc      '2025-07-03 20:45:54' 
_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          7krt 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":702}' 
#
_entry.id    7KRT 
#
_exptl.entry_id    7KRT 
_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    4 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          93.75 
_cell.angle_gamma         90 
_cell.entry_id            7KRT 
_cell.length_a            77.469 
_cell.length_b            199.529 
_cell.length_c            94.231 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7KRT 
_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
PISA monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 author_and_software_defined_assembly 2 
PISA monomeric 1 author_and_software_defined_assembly 3 
PISA monomeric 1 author_and_software_defined_assembly 4 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,E,F,M 1 1 
B,G,H,N 2 1 
C,I,J,O 3 1 
D,K,L,P 4 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 F N N 
? 3 H N N 
? 3 J N N 
? 3 L 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
disulf ? disulf1 A SG CYS 47 A CYS 47 1_555 A SG CYS 529 A CYS 529 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf2 B SG CYS 47 B CYS 47 1_555 B SG CYS 529 B CYS 529 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf3 C SG CYS 47 C CYS 47 1_555 C SG CYS 529 C CYS 529 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
disulf ? disulf4 D SG CYS 47 D CYS 47 1_555 D SG CYS 529 D CYS 529 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
metalc ? metalc1 E MG MG . A MG 701 1_555 F O3G ATP . A ATP 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.925 ? 
metalc ? metalc2 E MG MG . A MG 701 1_555 F O1B ATP . A ATP 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.939 ? 
metalc ? metalc3 E MG MG . A MG 701 1_555 M O HOH . A HOH 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? 
metalc ? metalc4 E MG MG . A MG 701 1_555 M O HOH . A HOH 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? 
metalc ? metalc5 E MG MG . A MG 701 1_555 M O HOH . A HOH 807 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? 
metalc ? metalc6 E MG MG . A MG 701 1_555 M O HOH . A HOH 808 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
metalc ? metalc7 G MG MG . B MG 701 1_555 H O1B ATP . B ATP 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.945 ? 
metalc ? metalc8 G MG MG . B MG 701 1_555 H O3G ATP . B ATP 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.925 ? 
metalc ? metalc9 G MG MG . B MG 701 1_555 N O HOH . B HOH 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
metalc ? metalc10 G MG MG . B MG 701 1_555 N O HOH . B HOH 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? 
metalc ? metalc11 G MG MG . B MG 701 1_555 N O HOH . B HOH 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? 
metalc ? metalc12 G MG MG . B MG 701 1_555 N O HOH . B HOH 806 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? 
metalc ? metalc13 I MG MG . C MG 701 1_555 J O1B ATP . C ATP 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.959 ? 
metalc ? metalc14 I MG MG . C MG 701 1_555 J O3G ATP . C ATP 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.895 ? 
metalc ? metalc15 I MG MG . C MG 701 1_555 O O HOH . C HOH 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? 
metalc ? metalc16 I MG MG . C MG 701 1_555 O O HOH . C HOH 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? 
metalc ? metalc17 I MG MG . C MG 701 1_555 O O HOH . C HOH 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? 
metalc ? metalc18 I MG MG . C MG 701 1_555 O O HOH . C HOH 806 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.005 ? 
metalc ? metalc19 K MG MG . D MG 701 1_555 L O3G ATP . D ATP 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.933 ? 
metalc ? metalc20 K MG MG . D MG 701 1_555 L O1B ATP . D ATP 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.945 ? 
metalc ? metalc21 K MG MG . D MG 701 1_555 P O HOH . D HOH 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
metalc ? metalc22 K MG MG . D MG 701 1_555 P O HOH . D HOH 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? 
metalc ? metalc23 K MG MG . D MG 701 1_555 P O HOH . D HOH 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? 
metalc ? metalc24 K MG MG . D MG 701 1_555 P O HOH . D HOH 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? 
#
_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     ? 
#
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 ATP doub 70 n n 
PG O2G ATP sing 71 n n 
PG O3G ATP sing 72 n n 
PG O3B ATP sing 73 n n 
O2G HOG2 ATP sing 74 n n 
O3G HOG3 ATP sing 75 n n 
PB O1B ATP doub 76 n n 
PB O2B ATP sing 77 n n 
PB O3B ATP sing 78 n n 
PB O3A ATP sing 79 n n 
O2B HOB2 ATP sing 80 n n 
PA O1A ATP doub 81 n n 
PA O2A ATP sing 82 n n 
PA O3A ATP sing 83 n n 
PA O5' ATP sing 84 n n 
O2A HOA2 ATP sing 85 n n 
O5' C5' ATP sing 86 n n 
C5' C4' ATP sing 87 n n 
C5' "H5'1" ATP sing 88 n n 
C5' "H5'2" ATP sing 89 n n 
C4' O4' ATP sing 90 n n 
C4' C3' ATP sing 91 n n 
C4' H4' ATP sing 92 n n 
O4' C1' ATP sing 93 n n 
C3' O3' ATP sing 94 n n 
C3' C2' ATP sing 95 n n 
C3' H3' ATP sing 96 n n 
O3' HO3' ATP sing 97 n n 
C2' O2' ATP sing 98 n n 
C2' C1' ATP sing 99 n n 
C2' H2' ATP sing 100 n n 
O2' HO2' ATP sing 101 n n 
C1' N9 ATP sing 102 n n 
C1' H1' ATP sing 103 n n 
N9 C8 ATP sing 104 n y 
N9 C4 ATP sing 105 n y 
C8 N7 ATP doub 106 n y 
C8 H8 ATP sing 107 n n 
N7 C5 ATP sing 108 n y 
C5 C6 ATP sing 109 n y 
C5 C4 ATP doub 110 n y 
C6 N6 ATP sing 111 n n 
C6 N1 ATP doub 112 n y 
N6 HN61 ATP sing 113 n n 
N6 HN62 ATP sing 114 n n 
N1 C2 ATP sing 115 n y 
C2 N3 ATP doub 116 n y 
C2 H2 ATP sing 117 n n 
N3 C4 ATP sing 118 n y 
#
_atom_sites.entry_id                     7KRT 
_atom_sites.fract_transf_matrix[1][1]    0.012908 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000845 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.005012 
_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]    0.010635 
_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
E 2 MG A 1 701 601 MG MG . 
F 3 ATP A 1 702 602 ATP ATP . 
G 2 MG B 1 701 601 MG MG . 
H 3 ATP B 1 702 602 ATP ATP . 
I 2 MG C 1 701 601 MG MG . 
J 3 ATP C 1 702 602 ATP ATP . 
K 2 MG D 1 701 601 MG MG . 
L 3 ATP D 1 702 602 ATP ATP . 
M 4 HOH A 1 801 609 HOH HOH . 
M 4 HOH A 2 802 611 HOH HOH . 
M 4 HOH A 3 803 606 HOH HOH . 
M 4 HOH A 4 804 604 HOH HOH . 
M 4 HOH A 5 805 607 HOH HOH . 
M 4 HOH A 6 806 608 HOH HOH . 
M 4 HOH A 7 807 605 HOH HOH . 
M 4 HOH A 8 808 603 HOH HOH . 
M 4 HOH A 9 809 613 HOH HOH . 
M 4 HOH A 10 810 614 HOH HOH . 
M 4 HOH A 11 811 610 HOH HOH . 
M 4 HOH A 12 812 612 HOH HOH . 
N 4 HOH B 1 801 604 HOH HOH . 
N 4 HOH B 2 802 609 HOH HOH . 
N 4 HOH B 3 803 603 HOH HOH . 
N 4 HOH B 4 804 607 HOH HOH . 
N 4 HOH B 5 805 606 HOH HOH . 
N 4 HOH B 6 806 605 HOH HOH . 
N 4 HOH B 7 807 610 HOH HOH . 
N 4 HOH B 8 808 608 HOH HOH . 
N 4 HOH B 9 809 611 HOH HOH . 
O 4 HOH C 1 801 604 HOH HOH . 
O 4 HOH C 2 802 605 HOH HOH . 
O 4 HOH C 3 803 603 HOH HOH . 
O 4 HOH C 4 804 609 HOH HOH . 
O 4 HOH C 5 805 607 HOH HOH . 
O 4 HOH C 6 806 606 HOH HOH . 
O 4 HOH C 7 807 608 HOH HOH . 
O 4 HOH C 8 808 610 HOH HOH . 
O 4 HOH C 9 809 612 HOH HOH . 
O 4 HOH C 10 810 611 HOH HOH . 
P 4 HOH D 1 801 609 HOH HOH . 
P 4 HOH D 2 802 610 HOH HOH . 
P 4 HOH D 3 803 608 HOH HOH . 
P 4 HOH D 4 804 607 HOH HOH . 
P 4 HOH D 5 805 604 HOH HOH . 
P 4 HOH D 6 806 603 HOH HOH . 
P 4 HOH D 7 807 606 HOH HOH . 
P 4 HOH D 8 808 605 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 . . . J 3 -2.645 17.217 -16.433 1 35.38 ? PG ATP 702 C 1 
HETATM 2 O O1G ATP . . . J 3 -1.265 16.959 -16.859 1 35.85 ? O1G ATP 702 C 1 
HETATM 3 O O2G ATP . . . J 3 -2.921 16.459 -15.209 1 48.12 ? O2G ATP 702 C 1 
HETATM 4 O O3G ATP . . . J 3 -2.83 18.672 -16.226 1 43.92 ? O3G ATP 702 C 1 
HETATM 5 P PB ATP . . . J 3 -3.925 17.448 -18.829 1 28.26 ? PB ATP 702 C 1 
HETATM 6 O O1B ATP . . . J 3 -3.67 18.906 -18.67 1 28.75 ? O1B ATP 702 C 1 
HETATM 7 O O2B ATP . . . J 3 -3.147 16.837 -19.928 1 38.76 ? O2B ATP 702 C 1 
HETATM 8 O O3B ATP . . . J 3 -3.618 16.698 -17.507 1 23.5 ? O3B ATP 702 C 1 
HETATM 9 P PA ATP . . . J 3 -6.532 18.03 -19.333 1 34.43 ? PA ATP 702 C 1 
HETATM 10 O O1A ATP . . . J 3 -6.545 18.241 -20.796 1 38.93 ? O1A ATP 702 C 1 
HETATM 11 O O2A ATP . . . J 3 -6.608 19.277 -18.533 1 34.78 ? O2A ATP 702 C 1 
HETATM 12 O O3A ATP . . . J 3 -5.426 17.057 -18.83 1 41.59 ? O3A ATP 702 C 1 
HETATM 13 O O5' ATP . . . J 3 -7.761 17.116 -18.9 1 26.09 ? O5' ATP 702 C 1 
HETATM 14 C C5' ATP . . . J 3 -8.037 15.958 -19.674 1 31.61 ? C5' ATP 702 C 1 
HETATM 15 C C4' ATP . . . J 3 -8.66 14.892 -18.749 1 31.99 ? C4' ATP 702 C 1 
HETATM 16 O O4' ATP . . . J 3 -10.042 15.242 -18.477 1 41.35 ? O4' ATP 702 C 1 
HETATM 17 C C3' ATP . . . J 3 -8.697 13.523 -19.451 1 34.64 ? C3' ATP 702 C 1 
HETATM 18 O O3' ATP . . . J 3 -8.56 12.457 -18.51 1 33.44 ? O3' ATP 702 C 1 
HETATM 19 C C2' ATP . . . J 3 -10.097 13.505 -20.067 1 39.51 ? C2' ATP 702 C 1 
HETATM 20 O O2' ATP . . . J 3 -10.539 12.165 -20.325 1 33.2 ? O2' ATP 702 C 1 
HETATM 21 C C1' ATP . . . J 3 -10.955 14.28 -19.035 1 44.7 ? C1' ATP 702 C 1 
HETATM 22 N N9 ATP . . . J 3 -12.101 14.997 -19.592 1 45.05 ? N9 ATP 702 C 1 
HETATM 23 C C8 ATP . . . J 3 -12.122 15.922 -20.645 1 45.02 ? C8 ATP 702 C 1 
HETATM 24 N N7 ATP . . . J 3 -13.357 16.36 -20.937 1 58.48 ? N7 ATP 702 C 1 
HETATM 25 C C5 ATP . . . J 3 -14.105 15.725 -19.987 1 46.58 ? C5 ATP 702 C 1 
HETATM 26 C C6 ATP . . . J 3 -15.482 15.77 -19.789 1 38.46 ? C6 ATP 702 C 1 
HETATM 27 N N6 ATP . . . J 3 -16.32 16.464 -20.584 1 39.14 ? N6 ATP 702 C 1 
HETATM 28 N N1 ATP . . . J 3 -16.089 15.046 -18.866 1 39.75 ? N1 ATP 702 C 1 
HETATM 29 C C2 ATP . . . J 3 -15.295 14.268 -18.122 1 34.5 ? C2 ATP 702 C 1 
HETATM 30 N N3 ATP . . . J 3 -13.958 14.144 -18.221 1 47.42 ? N3 ATP 702 C 1 
HETATM 31 C C4 ATP . . . J 3 -13.391 14.908 -19.173 1 48.6 ? C4 ATP 702 C 1 
#
_model_server_stats.io_time_ms              35 
_model_server_stats.parse_time_ms           25 
_model_server_stats.create_model_time_ms    18 
_model_server_stats.query_time_ms           277 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           31 
#