data_3LY6
#
_model_server_result.job_id            s6pV6c1ufxa-JNSxsNxgvw 
_model_server_result.datetime_utc      '2024-11-04 20:37:31' 
_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          3ly6 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":702}' 
#
_entry.id    3LY6 
#
_exptl.entry_id    3LY6 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              507.181 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-TRIPHOSPHATE" 
_entity.pdbx_number_of_molecules    3 
_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            3LY6 
_cell.length_a            134.175 
_cell.length_b            215.759 
_cell.length_c            165.956 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3LY6 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        20 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 2 2 21' 
#
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 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,D 1 1 
B,E 2 1 
C,F 3 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 D N N 
? 2 E N N 
? 2 F 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 230 A CYS 230 1_555 A SG CYS 370 A CYS 370 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf2 B SG CYS 230 B CYS 230 1_555 B SG CYS 370 B CYS 370 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf3 C SG CYS 230 C CYS 230 1_555 C SG CYS 370 C CYS 370 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
#
_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                     3LY6 
_atom_sites.fract_transf_matrix[1][1]    0.007453 
_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]    0.004635 
_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]    0.006026 
_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
D 2 ATP A 1 700 700 ATP ATP . 
E 2 ATP B 1 701 701 ATP ATP . 
F 2 ATP C 1 702 702 ATP ATP . 
#
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 . . . F 2 42.509 67.043 23.936 1 72.17 ? PG ATP 702 C 1 
HETATM 2 O O1G ATP . . . F 2 42.202 65.727 24.815 1 72.17 ? O1G ATP 702 C 1 
HETATM 3 O O2G ATP . . . F 2 43.611 67.864 24.489 1 72.17 ? O2G ATP 702 C 1 
HETATM 4 O O3G ATP . . . F 2 42.805 66.507 22.447 1 72.17 ? O3G ATP 702 C 1 
HETATM 5 P PB ATP . . . F 2 39.913 67.592 24.843 1 72.17 ? PB ATP 702 C 1 
HETATM 6 O O1B ATP . . . F 2 40.509 66.708 26.048 1 72.17 ? O1B ATP 702 C 1 
HETATM 7 O O2B ATP . . . F 2 39.289 68.846 25.32 1 72.17 ? O2B ATP 702 C 1 
HETATM 8 O O3B ATP . . . F 2 41.135 67.876 23.838 1 72.17 ? O3B ATP 702 C 1 
HETATM 9 P PA ATP . . . F 2 38.782 65.055 24.289 1 72.17 ? PA ATP 702 C 1 
HETATM 10 O O1A ATP . . . F 2 38.504 64.418 22.982 1 72.17 ? O1A ATP 702 C 1 
HETATM 11 O O2A ATP . . . F 2 39.96 64.6 25.058 1 72.17 ? O2A ATP 702 C 1 
HETATM 12 O O3A ATP . . . F 2 38.895 66.642 24.034 1 72.17 ? O3A ATP 702 C 1 
HETATM 13 O O5' ATP . . . F 2 37.474 64.923 25.216 1 72.17 ? O5' ATP 702 C 1 
HETATM 14 C C5' ATP . . . F 2 37.565 65.169 26.621 1 72.17 ? C5' ATP 702 C 1 
HETATM 15 C C4' ATP . . . F 2 36.235 64.887 27.324 1 72.17 ? C4' ATP 702 C 1 
HETATM 16 O O4' ATP . . . F 2 35.211 65.574 26.583 1 72.17 ? O4' ATP 702 C 1 
HETATM 17 C C3' ATP . . . F 2 35.916 63.395 27.197 1 72.17 ? C3' ATP 702 C 1 
HETATM 18 O O3' ATP . . . F 2 34.906 63.015 28.136 1 72.17 ? O3' ATP 702 C 1 
HETATM 19 C C2' ATP . . . F 2 35.336 63.367 25.785 1 72.17 ? C2' ATP 702 C 1 
HETATM 20 O O2' ATP . . . F 2 34.543 62.188 25.63 1 72.17 ? O2' ATP 702 C 1 
HETATM 21 C C1' ATP . . . F 2 34.413 64.577 25.92 1 72.17 ? C1' ATP 702 C 1 
HETATM 22 N N9 ATP . . . F 2 33.925 65.031 24.595 1 72.17 ? N9 ATP 702 C 1 
HETATM 23 C C8 ATP . . . F 2 34.666 65.201 23.507 1 72.17 ? C8 ATP 702 C 1 
HETATM 24 N N7 ATP . . . F 2 33.894 65.611 22.498 1 72.17 ? N7 ATP 702 C 1 
HETATM 25 C C5 ATP . . . F 2 32.652 65.699 22.955 1 72.17 ? C5 ATP 702 C 1 
HETATM 26 C C6 ATP . . . F 2 31.436 66.059 22.381 1 72.17 ? C6 ATP 702 C 1 
HETATM 27 N N6 ATP . . . F 2 31.374 66.382 21.095 1 72.17 ? N6 ATP 702 C 1 
HETATM 28 N N1 ATP . . . F 2 30.336 66.044 23.143 1 72.17 ? N1 ATP 702 C 1 
HETATM 29 C C2 ATP . . . F 2 30.386 65.687 24.417 1 72.17 ? C2 ATP 702 C 1 
HETATM 30 N N3 ATP . . . F 2 31.521 65.339 24.991 1 72.17 ? N3 ATP 702 C 1 
HETATM 31 C C4 ATP . . . F 2 32.665 65.335 24.292 1 72.17 ? C4 ATP 702 C 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    30 
_model_server_stats.query_time_ms           304 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           31 
#