data_7GPB # _model_server_result.job_id qJun-KtzcjnTa2W2un79Ag _model_server_result.datetime_utc '2024-10-16 12:25:21' _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 7gpb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":920}' # _entry.id 7GPB # _exptl.entry_id 7GPB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 347.221 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ADENOSINE MONOPHOSPHATE' _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 109.35 _cell.angle_gamma 90 _cell.entry_id 7GPB _cell.length_a 119 _cell.length_b 190 _cell.length_c 88.2 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7GPB _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,H,I,J,K,L,M,N,O,P,Q,R,S _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 ? 4 H N N ? 4 L N N ? 4 P N N ? 4 S 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 covale ? covale1 A NZ LYS 680 A LYS 680 1_555 G C4A PLP . A PLP 999 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.349 ? covale ? covale2 B NZ LYS 680 B LYS 680 1_555 K C4A PLP . B PLP 999 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.349 ? covale ? covale3 C NZ LYS 680 C LYS 680 1_555 O C4A PLP . C PLP 999 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.364 ? covale ? covale4 D NZ LYS 680 D LYS 680 1_555 R C4A PLP . D PLP 999 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.347 ? # _chem_comp.formula 'C10 H14 N5 O7 P' _chem_comp.formula_weight 347.221 _chem_comp.id AMP _chem_comp.mon_nstd_flag . _chem_comp.name 'ADENOSINE MONOPHOSPHATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 7GPB _atom_sites.fract_transf_matrix[1][1] 0.008403 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002951 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005263 _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] 0.012017 _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 SO4 A 1 900 900 SO4 SO4 . F 2 SO4 A 1 901 901 SO4 SO4 . G 3 PLP A 1 999 999 PLP PLP . H 4 AMP A 1 920 920 AMP AMP . I 2 SO4 B 1 900 900 SO4 SO4 . J 2 SO4 B 1 901 901 SO4 SO4 . K 3 PLP B 1 999 999 PLP PLP . L 4 AMP B 1 920 920 AMP AMP . M 2 SO4 C 1 900 900 SO4 SO4 . N 2 SO4 C 1 901 901 SO4 SO4 . O 3 PLP C 1 999 999 PLP PLP . P 4 AMP C 1 920 920 AMP AMP . Q 2 SO4 D 1 900 900 SO4 SO4 . R 3 PLP D 1 999 999 PLP PLP . S 4 AMP D 1 920 920 AMP AMP . # 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 P AMP . . . H 4 64.891 -16.396 36.487 1 33.51 ? P AMP 920 A 1 HETATM 2 O O1P AMP . . . H 4 66.243 -16.698 37.002 1 36.75 ? O1P AMP 920 A 1 HETATM 3 O O2P AMP . . . H 4 64.746 -16.506 35.019 1 31.39 ? O2P AMP 920 A 1 HETATM 4 O O3P AMP . . . H 4 64.245 -15.21 37.099 1 36.81 ? O3P AMP 920 A 1 HETATM 5 O O5' AMP . . . H 4 64.02 -17.638 37.039 1 24.4 ? O5' AMP 920 A 1 HETATM 6 C C5' AMP . . . H 4 62.646 -17.517 37.454 1 19.88 ? C5' AMP 920 A 1 HETATM 7 C C4' AMP . . . H 4 62.217 -18.788 38.205 1 19.41 ? C4' AMP 920 A 1 HETATM 8 O O4' AMP . . . H 4 62.367 -19.889 37.296 1 19.23 ? O4' AMP 920 A 1 HETATM 9 C C3' AMP . . . H 4 63.096 -19.16 39.396 1 27.32 ? C3' AMP 920 A 1 HETATM 10 O O3' AMP . . . H 4 62.671 -18.376 40.519 1 35.21 ? O3' AMP 920 A 1 HETATM 11 C C2' AMP . . . H 4 62.726 -20.636 39.563 1 26.83 ? C2' AMP 920 A 1 HETATM 12 O O2' AMP . . . H 4 61.374 -20.818 40.026 1 32.38 ? O2' AMP 920 A 1 HETATM 13 C C1' AMP . . . H 4 62.743 -21.037 38.072 1 29.03 ? C1' AMP 920 A 1 HETATM 14 N N9 AMP . . . H 4 64.075 -21.504 37.58 1 34.76 ? N9 AMP 920 A 1 HETATM 15 C C8 AMP . . . H 4 65.115 -20.749 37.067 1 35.48 ? C8 AMP 920 A 1 HETATM 16 N N7 AMP . . . H 4 66.142 -21.46 36.69 1 36.46 ? N7 AMP 920 A 1 HETATM 17 C C5 AMP . . . H 4 65.765 -22.767 36.968 1 36.67 ? C5 AMP 920 A 1 HETATM 18 C C6 AMP . . . H 4 66.426 -23.989 36.791 1 38.16 ? C6 AMP 920 A 1 HETATM 19 N N6 AMP . . . H 4 67.645 -24.068 36.265 1 43.97 ? N6 AMP 920 A 1 HETATM 20 N N1 AMP . . . H 4 65.78 -25.101 37.168 1 38.01 ? N1 AMP 920 A 1 HETATM 21 C C2 AMP . . . H 4 64.561 -24.997 37.684 1 42.59 ? C2 AMP 920 A 1 HETATM 22 N N3 AMP . . . H 4 63.83 -23.913 37.903 1 44.66 ? N3 AMP 920 A 1 HETATM 23 C C4 AMP . . . H 4 64.509 -22.808 37.512 1 39.29 ? C4 AMP 920 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 30 _model_server_stats.query_time_ms 258 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 23 #