data_2Y4I
#
_model_server_result.job_id            7Xle2CrHs-P0m3rxGpOrXg 
_model_server_result.datetime_utc      '2024-11-07 19:11:55' 
_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          2y4i 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":1932}' 
#
_entry.id    2Y4I 
#
_exptl.entry_id    2Y4I 
_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          90 
_cell.angle_gamma         120 
_cell.entry_id            2Y4I 
_cell.length_a            130.565 
_cell.length_b            130.565 
_cell.length_c            221.005 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2Y4I 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        178 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 61 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 
_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 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 OD1 ASN 160 B ASN 791 1_555 D MG MG . B MG 1933 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.621 ? 
metalc ? metalc2 A OD2 ASP 172 B ASP 803 1_555 D MG MG . B MG 1933 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.456 ? 
metalc ? metalc3 C O1B ATP . B ATP 1932 1_555 D MG MG . B MG 1933 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.709 ? 
metalc ? metalc4 C O2A ATP . B ATP 1932 1_555 D MG MG . B MG 1933 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.59 ? 
metalc ? metalc5 B O SER 196 C SER 194 1_555 F MG MG . C MG 1383 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.714 ? 
metalc ? metalc6 B OD1 ASN 197 C ASN 195 1_555 F MG MG . C MG 1383 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.856 ? 
metalc ? metalc7 B OD2 ASP 210 C ASP 208 1_555 F MG MG . C MG 1383 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.8 ? 
metalc ? metalc8 E O1B ATP . C ATP 1382 1_555 F MG MG . C MG 1383 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.823 ? 
metalc ? metalc9 E O2A ATP . C ATP 1382 1_555 F MG MG . C MG 1383 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.96 ? 
#
_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                     2Y4I 
_atom_sites.fract_transf_matrix[1][1]    0.007659 
_atom_sites.fract_transf_matrix[1][2]    0.004422 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.008844 
_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]    0.004525 
_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 3 ATP B 1 1932 1932 ATP ATP . 
D 4 MG B 1 1933 1933 MG MG . 
E 3 ATP C 1 1382 1382 ATP ATP . 
F 4 MG C 1 1383 1383 MG MG . 
G 5 CL C 1 1384 1384 CL CL . 
#
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 . . . C 3 -12.986 59.971 -3.755 1 127.97 ? PG ATP 1932 B 1 
HETATM 2 O O1G ATP . . . C 3 -11.904 59.108 -3.149 1 127.56 ? O1G ATP 1932 B 1 
HETATM 3 O O2G ATP . . . C 3 -14.229 60.097 -2.908 1 134.28 ? O2G ATP 1932 B 1 
HETATM 4 O O3G ATP . . . C 3 -13.266 59.682 -5.211 1 121.39 ? O3G ATP 1932 B 1 
HETATM 5 P PB ATP . . . C 3 -10.765 61.649 -3.827 1 102.68 ? PB ATP 1932 B 1 
HETATM 6 O O1B ATP . . . C 3 -10.443 63.093 -4.138 1 99.47 ? O1B ATP 1932 B 1 
HETATM 7 O O2B ATP . . . C 3 -10.157 61.005 -2.606 1 102.93 ? O2B ATP 1932 B 1 
HETATM 8 O O3B ATP . . . C 3 -12.361 61.458 -3.758 1 265.64 ? O3B ATP 1932 B 1 
HETATM 9 P PA ATP . . . C 3 -9.539 61.117 -6.367 1 102.98 ? PA ATP 1932 B 1 
HETATM 10 O O1A ATP . . . C 3 -9.918 60.193 -7.505 1 96.05 ? O1A ATP 1932 B 1 
HETATM 11 O O2A ATP . . . C 3 -9.591 62.615 -6.552 1 105.7 ? O2A ATP 1932 B 1 
HETATM 12 O O3A ATP . . . C 3 -10.479 60.726 -5.12 1 268.14 ? O3A ATP 1932 B 1 
HETATM 13 O O5' ATP . . . C 3 -8.06 60.735 -5.865 1 107.72 ? O5' ATP 1932 B 1 
HETATM 14 C C5' ATP . . . C 3 -7.777 60.732 -4.471 1 110.6 ? C5' ATP 1932 B 1 
HETATM 15 C C4' ATP . . . C 3 -6.376 61.258 -4.218 1 109.22 ? C4' ATP 1932 B 1 
HETATM 16 O O4' ATP . . . C 3 -5.858 61.864 -5.403 1 101.19 ? O4' ATP 1932 B 1 
HETATM 17 C C3' ATP . . . C 3 -6.416 62.307 -3.118 1 117.73 ? C3' ATP 1932 B 1 
HETATM 18 O O3' ATP . . . C 3 -5.674 61.849 -1.984 1 123.1 ? O3' ATP 1932 B 1 
HETATM 19 C C2' ATP . . . C 3 -5.772 63.539 -3.717 1 118.99 ? C2' ATP 1932 B 1 
HETATM 20 O O2' ATP . . . C 3 -4.712 64.024 -2.885 1 126.28 ? O2' ATP 1932 B 1 
HETATM 21 C C1' ATP . . . C 3 -5.241 63.109 -5.077 1 107.31 ? C1' ATP 1932 B 1 
HETATM 22 N N9 ATP . . . C 3 -5.649 64.115 -6.078 1 98.46 ? N9 ATP 1932 B 1 
HETATM 23 C C8 ATP . . . C 3 -6.663 63.956 -6.943 1 102.1 ? C8 ATP 1932 B 1 
HETATM 24 N N7 ATP . . . C 3 -6.796 65.052 -7.731 1 106.87 ? N7 ATP 1932 B 1 
HETATM 25 C C5 ATP . . . C 3 -5.85 65.937 -7.367 1 101.26 ? C5 ATP 1932 B 1 
HETATM 26 C C6 ATP . . . C 3 -5.44 67.293 -7.8 1 104.26 ? C6 ATP 1932 B 1 
HETATM 27 N N6 ATP . . . C 3 -6.095 67.927 -8.806 1 108.98 ? N6 ATP 1932 B 1 
HETATM 28 N N1 ATP . . . C 3 -4.396 67.867 -7.157 1 98.39 ? N1 ATP 1932 B 1 
HETATM 29 C C2 ATP . . . C 3 -3.749 67.236 -6.16 1 90.28 ? C2 ATP 1932 B 1 
HETATM 30 N N3 ATP . . . C 3 -4.071 66.006 -5.72 1 86.11 ? N3 ATP 1932 B 1 
HETATM 31 C C4 ATP . . . C 3 -5.093 65.314 -6.274 1 92.27 ? C4 ATP 1932 B 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    15 
_model_server_stats.query_time_ms           232 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           31 
#