data_3M1F # _model_server_result.job_id eZA4j_F39QvLULPpxCINTg _model_server_result.datetime_utc '2025-04-13 07:25:54' _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 3m1f # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":400}' # _entry.id 3M1F # _exptl.entry_id 3M1F _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 1 _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 3M1F _cell.length_a 66.606 _cell.length_b 76.363 _cell.length_c 86.137 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3M1F _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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 _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 disulf ? disulf1 A SG CYS 374 A CYS 374 1_555 B SG CYS 2 V CYS 131 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.319 ? covale ? covale1 A C GLU 72 A GLU 72 1_555 A N HIC 73 A HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale2 A C HIC 73 A HIC 73 1_555 A N GLY 74 A GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? metalc ? metalc1 C O1B ATP . A ATP 400 1_555 D CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.185 ? metalc ? metalc2 C O2G ATP . A ATP 400 1_555 D CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.253 ? # _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 3M1F _atom_sites.fract_transf_matrix[1][1] 0.015014 _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] 0.013095 _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] 0.011609 _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 A 1 400 400 ATP ATP . D 4 CA A 1 401 401 CA CA . # 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 18.432 4.387 18.031 1 51.2 ? PG ATP 400 A 1 HETATM 2 O O1G ATP . . . C 3 19.432 5.209 18.805 1 50.06 ? O1G ATP 400 A 1 HETATM 3 O O2G ATP . . . C 3 18.803 4.222 16.58 1 52.04 ? O2G ATP 400 A 1 HETATM 4 O O3G ATP . . . C 3 17.99 3.133 18.729 1 52.48 ? O3G ATP 400 A 1 HETATM 5 P PB ATP . . . C 3 16.216 5.618 16.698 1 56.46 ? PB ATP 400 A 1 HETATM 6 O O1B ATP . . . C 3 16.367 4.515 15.683 1 52.24 ? O1B ATP 400 A 1 HETATM 7 O O2B ATP . . . C 3 14.821 5.934 17.175 1 52.35 ? O2B ATP 400 A 1 HETATM 8 O O3B ATP . . . C 3 17.096 5.29 18.017 1 56.61 ? O3B ATP 400 A 1 HETATM 9 P PA ATP . . . C 3 16.647 7.742 14.786 1 61.76 ? PA ATP 400 A 1 HETATM 10 O O1A ATP . . . C 3 17.688 7.35 13.755 1 54.41 ? O1A ATP 400 A 1 HETATM 11 O O2A ATP . . . C 3 15.183 7.59 14.427 1 58.8 ? O2A ATP 400 A 1 HETATM 12 O O3A ATP . . . C 3 16.956 6.969 16.179 1 54.7 ? O3A ATP 400 A 1 HETATM 13 O O5' ATP . . . C 3 16.915 9.279 15.169 1 54.43 ? O5' ATP 400 A 1 HETATM 14 C C5' ATP . . . C 3 16.193 9.918 16.217 1 56.67 ? C5' ATP 400 A 1 HETATM 15 C C4' ATP . . . C 3 17.076 11.026 16.785 1 57.16 ? C4' ATP 400 A 1 HETATM 16 O O4' ATP . . . C 3 17.648 11.816 15.735 1 58.27 ? O4' ATP 400 A 1 HETATM 17 C C3' ATP . . . C 3 16.305 11.966 17.7 1 56.22 ? C3' ATP 400 A 1 HETATM 18 O O3' ATP . . . C 3 16.962 11.978 18.971 1 54.6 ? O3' ATP 400 A 1 HETATM 19 C C2' ATP . . . C 3 16.403 13.33 17.043 1 55.53 ? C2' ATP 400 A 1 HETATM 20 O O2' ATP . . . C 3 16.656 14.368 17.985 1 56.41 ? O2' ATP 400 A 1 HETATM 21 C C1' ATP . . . C 3 17.591 13.197 16.112 1 56.72 ? C1' ATP 400 A 1 HETATM 22 N N9 ATP . . . C 3 17.418 14.099 14.95 1 57.89 ? N9 ATP 400 A 1 HETATM 23 C C8 ATP . . . C 3 16.449 14.017 14.017 1 59.25 ? C8 ATP 400 A 1 HETATM 24 N N7 ATP . . . C 3 16.583 15.006 13.094 1 60.49 ? N7 ATP 400 A 1 HETATM 25 C C5 ATP . . . C 3 17.656 15.74 13.44 1 57.69 ? C5 ATP 400 A 1 HETATM 26 C C6 ATP . . . C 3 18.355 16.924 12.901 1 59.15 ? C6 ATP 400 A 1 HETATM 27 N N6 ATP . . . C 3 17.904 17.528 11.777 1 62.56 ? N6 ATP 400 A 1 HETATM 28 N N1 ATP . . . C 3 19.443 17.378 13.568 1 58.51 ? N1 ATP 400 A 1 HETATM 29 C C2 ATP . . . C 3 19.889 16.778 14.686 1 54.53 ? C2 ATP 400 A 1 HETATM 30 N N3 ATP . . . C 3 19.304 15.696 15.229 1 55.63 ? N3 ATP 400 A 1 HETATM 31 C C4 ATP . . . C 3 18.202 15.142 14.667 1 57.81 ? C4 ATP 400 A 1 # _model_server_stats.io_time_ms 69 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 281 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 31 #