data_3CJB # _model_server_result.job_id GIZCcnsWJMba0m2MqoJs4w _model_server_result.datetime_utc '2024-11-15 09:01:31' _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 3cjb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":377}' # _entry.id 3CJB # _exptl.entry_id 3CJB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 4 _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 3CJB _cell.length_a 56.696 _cell.length_b 69.54 _cell.length_c 182.106 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3CJB _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,E,F _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 4 _struct_asym.id D _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 metalc ? metalc1 C CA CA . A CA 376 1_555 D O2B ATP . A ATP 377 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.33 ? metalc ? metalc2 B O GLY 41 G GLY 41 1_555 E CA CA . G CA 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.345 ? metalc ? metalc3 B OD2 ASP 42 G ASP 42 1_555 E CA CA . G CA 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.473 ? metalc ? metalc4 B OE1 GLU 73 G GLU 73 1_555 E CA CA . G CA 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.689 ? metalc ? metalc5 B OE2 GLU 73 G GLU 73 1_555 E CA CA . G CA 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.821 ? metalc ? metalc6 B O VAL 121 G VAL 121 1_555 E CA CA . G CA 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? # _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 3CJB _atom_sites.fract_transf_matrix[1][1] 0.017638 _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] 0.01438 _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] 0.005491 _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 CA A 1 376 2 CA CA . D 4 ATP A 1 377 1 ATP ATP . E 3 CA G 1 126 3 CA CA . F 5 HOH A 1 378 1 HOH HOH . F 5 HOH A 2 379 2 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 4 -5.943 -1.999 19.209 1 21.76 ? PG ATP 377 A 1 HETATM 2 O O1G ATP . . . D 4 -7.005 -1.083 19.777 1 21.48 ? O1G ATP 377 A 1 HETATM 3 O O2G ATP . . . D 4 -5.382 -1.549 17.886 1 20.99 ? O2G ATP 377 A 1 HETATM 4 O O3G ATP . . . D 4 -4.902 -2.441 20.213 1 21.52 ? O3G ATP 377 A 1 HETATM 5 P PB ATP . . . D 4 -7.729 -4.091 19.869 1 24.19 ? PB ATP 377 A 1 HETATM 6 O O1B ATP . . . D 4 -9.102 -4.188 19.251 1 24.03 ? O1B ATP 377 A 1 HETATM 7 O O2B ATP . . . D 4 -7.567 -3.539 21.27 1 24.35 ? O2B ATP 377 A 1 HETATM 8 O O3B ATP . . . D 4 -6.753 -3.337 18.826 1 22.79 ? O3B ATP 377 A 1 HETATM 9 P PA ATP . . . D 4 -7.255 -6.646 20.966 1 26.13 ? PA ATP 377 A 1 HETATM 10 O O1A ATP . . . D 4 -8.727 -6.749 21.3 1 25.26 ? O1A ATP 377 A 1 HETATM 11 O O2A ATP . . . D 4 -6.234 -6.407 22.056 1 26.29 ? O2A ATP 377 A 1 HETATM 12 O O3A ATP . . . D 4 -7.057 -5.545 19.814 1 25.09 ? O3A ATP 377 A 1 HETATM 13 O O5' ATP . . . D 4 -6.795 -7.951 20.147 1 26.91 ? O5' ATP 377 A 1 HETATM 14 C C5' ATP . . . D 4 -7.429 -8.326 18.924 1 27.99 ? C5' ATP 377 A 1 HETATM 15 C C4' ATP . . . D 4 -6.421 -8.978 17.984 1 28.44 ? C4' ATP 377 A 1 HETATM 16 O O4' ATP . . . D 4 -5.63 -9.938 18.691 1 28.62 ? O4' ATP 377 A 1 HETATM 17 C C3' ATP . . . D 4 -7.095 -9.721 16.835 1 29.17 ? C3' ATP 377 A 1 HETATM 18 O O3' ATP . . . D 4 -6.803 -9.087 15.586 1 29.39 ? O3' ATP 377 A 1 HETATM 19 C C2' ATP . . . D 4 -6.542 -11.135 16.876 1 29.36 ? C2' ATP 377 A 1 HETATM 20 O O2' ATP . . . D 4 -6.086 -11.583 15.594 1 30.15 ? O2' ATP 377 A 1 HETATM 21 C C1' ATP . . . D 4 -5.385 -11.072 17.858 1 28.83 ? C1' ATP 377 A 1 HETATM 22 N N9 ATP . . . D 4 -5.27 -12.342 18.622 1 28.02 ? N9 ATP 377 A 1 HETATM 23 C C8 ATP . . . D 4 -6.111 -12.842 19.55 1 27.88 ? C8 ATP 377 A 1 HETATM 24 N N7 ATP . . . D 4 -5.658 -14.039 20.019 1 27.16 ? N7 ATP 377 A 1 HETATM 25 C C5 ATP . . . D 4 -4.507 -14.309 19.383 1 26.77 ? C5 ATP 377 A 1 HETATM 26 C C6 ATP . . . D 4 -3.502 -15.395 19.384 1 26.81 ? C6 ATP 377 A 1 HETATM 27 N N6 ATP . . . D 4 -3.62 -16.473 20.188 1 27.05 ? N6 ATP 377 A 1 HETATM 28 N N1 ATP . . . D 4 -2.446 -15.275 18.553 1 27.19 ? N1 ATP 377 A 1 HETATM 29 C C2 ATP . . . D 4 -2.293 -14.212 17.74 1 27.41 ? C2 ATP 377 A 1 HETATM 30 N N3 ATP . . . D 4 -3.162 -13.191 17.687 1 27.23 ? N3 ATP 377 A 1 HETATM 31 C C4 ATP . . . D 4 -4.264 -13.188 18.467 1 27.3 ? C4 ATP 377 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 254 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #