data_4RER # _model_server_result.job_id YIyUoe8G7A7zGBh2BRCDaA _model_server_result.datetime_utc '2024-10-19 03:57:26' _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 4rer # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":403}' # _entry.id 4RER # _exptl.entry_id 4RER _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 347.221 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ADENOSINE MONOPHOSPHATE' _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 120 _cell.entry_id 4RER _cell.length_a 132.566 _cell.length_b 132.566 _cell.length_c 195.392 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4RER _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _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 ? 7 G N N ? 7 H N N ? 7 I N N # _pdbx_entity_branch.entity_id 4 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 4 1 7 GLC GLC C1 O1 . O4 HO4 . sing 2 ? 4 2 1 GLC GLC C1 O1 . O4 HO4 . sing 3 ? 4 3 2 GLC GLC C1 O1 . O4 HO4 . sing 4 ? 4 4 3 GLC GLC C1 O1 . O4 HO4 . sing 5 ? 4 5 4 GLC GLC C1 O1 . O4 HO4 . sing 6 ? 4 6 5 GLC GLC C1 O1 . O4 HO4 . sing 7 ? 4 7 6 GLC GLC C1 O1 . O4 HO4 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 4 n D GLC 1 C 1 GLC B 10 BCD 4 n D GLC 2 C 2 GLC B 10 BCD 4 n D GLC 3 C 3 GLC B 10 BCD 4 n D GLC 4 C 4 GLC B 10 BCD 4 n D GLC 5 C 5 GLC B 10 BCD 4 n D GLC 6 C 6 GLC B 10 BCD 4 n D GLC 7 C 7 GLC B 10 BCD # 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 C ARG 163 A ARG 173 1_555 A N TPO 164 A TPO 174 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? covale ? covale2 A C TPO 164 A TPO 174 1_555 A N SER 165 A SER 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale3 B C LYS 32 B LYS 107 1_555 B N SEP 33 B SEP 108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale4 B C SEP 33 B SEP 108 1_555 B N HIS 34 B HIS 109 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale5 D O4 GLC . C GLC 1 1_555 D C1 GLC . C GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.462 sing covale ? covale6 D C1 GLC . C GLC 1 1_555 D O4 GLC . C GLC 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 sing covale ? covale7 D O4 GLC . C GLC 2 1_555 D C1 GLC . C GLC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.402 sing covale ? covale8 D O4 GLC . C GLC 3 1_555 D C1 GLC . C GLC 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 sing covale ? covale9 D O4 GLC . C GLC 4 1_555 D C1 GLC . C GLC 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.383 sing covale ? covale10 D O4 GLC . C GLC 5 1_555 D C1 GLC . C GLC 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.408 sing covale ? covale11 D O4 GLC . C GLC 6 1_555 D C1 GLC . C GLC 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.421 sing # _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 ? # 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 P O1P AMP doub 13 n n P O2P AMP sing 14 n n P O3P AMP sing 15 n n P O5' AMP sing 16 n n O2P HOP2 AMP sing 17 n n O3P HOP3 AMP sing 18 n n O5' C5' AMP sing 19 n n C5' C4' AMP sing 20 n n C5' "H5'1" AMP sing 21 n n C5' "H5'2" AMP sing 22 n n C4' O4' AMP sing 23 n n C4' C3' AMP sing 24 n n C4' H4' AMP sing 25 n n O4' C1' AMP sing 26 n n C3' O3' AMP sing 27 n n C3' C2' AMP sing 28 n n C3' H3' AMP sing 29 n n O3' HO3' AMP sing 30 n n C2' O2' AMP sing 31 n n C2' C1' AMP sing 32 n n C2' H2' AMP sing 33 n n O2' HO2' AMP sing 34 n n C1' N9 AMP sing 35 n n C1' H1' AMP sing 36 n n N9 C8 AMP sing 37 n y N9 C4 AMP sing 38 n y C8 N7 AMP doub 39 n y C8 H8 AMP sing 40 n n N7 C5 AMP sing 41 n y C5 C6 AMP sing 42 n y C5 C4 AMP doub 43 n y C6 N6 AMP sing 44 n n C6 N1 AMP doub 45 n y N6 HN61 AMP sing 46 n n N6 HN62 AMP sing 47 n n N1 C2 AMP sing 48 n y C2 N3 AMP doub 49 n y C2 H2 AMP sing 50 n n N3 C4 AMP sing 51 n y # _atom_sites.entry_id 4RER _atom_sites.fract_transf_matrix[1][1] 0.007543 _atom_sites.fract_transf_matrix[1][2] 0.004355 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00871 _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] 0.005118 _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 5 STU A 1 601 1000 STU STU . F 6 EPE A 1 602 1100 EPE EPE . G 7 AMP G 1 401 1300 AMP AMP . H 7 AMP G 1 402 1400 AMP AMP . I 7 AMP G 1 403 1500 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 . . . I 7 66.594 -69.752 54.531 1 112.57 ? P AMP 403 G 1 HETATM 2 O O1P AMP . . . I 7 65.648 -68.956 53.523 1 112.4 ? O1P AMP 403 G 1 HETATM 3 O O2P AMP . . . I 7 67.294 -68.981 55.713 1 111.8 ? O2P AMP 403 G 1 HETATM 4 O O3P AMP . . . I 7 67.573 -70.462 53.758 1 125.36 ? O3P AMP 403 G 1 HETATM 5 O O5' AMP . . . I 7 65.706 -70.866 55.223 1 114.89 ? O5' AMP 403 G 1 HETATM 6 C C5' AMP . . . I 7 64.539 -70.486 55.922 1 116.14 ? C5' AMP 403 G 1 HETATM 7 C C4' AMP . . . I 7 63.998 -71.605 56.759 1 118.49 ? C4' AMP 403 G 1 HETATM 8 O O4' AMP . . . I 7 65.047 -72.106 57.622 1 118.37 ? O4' AMP 403 G 1 HETATM 9 C C3' AMP . . . I 7 62.85 -71.204 57.657 1 120.12 ? C3' AMP 403 G 1 HETATM 10 O O3' AMP . . . I 7 61.913 -72.273 57.778 1 122.79 ? O3' AMP 403 G 1 HETATM 11 C C2' AMP . . . I 7 63.526 -70.889 58.994 1 119.85 ? C2' AMP 403 G 1 HETATM 12 O O2' AMP . . . I 7 62.729 -71.155 60.131 1 122.16 ? O2' AMP 403 G 1 HETATM 13 C C1' AMP . . . I 7 64.797 -71.753 58.971 1 119.2 ? C1' AMP 403 G 1 HETATM 14 N N9 AMP . . . I 7 65.995 -71.065 59.477 1 130.76 ? N9 AMP 403 G 1 HETATM 15 C C8 AMP . . . I 7 66.426 -69.842 59.113 1 128.83 ? C8 AMP 403 G 1 HETATM 16 N N7 AMP . . . I 7 67.568 -69.535 59.766 1 128 ? N7 AMP 403 G 1 HETATM 17 C C5 AMP . . . I 7 67.88 -70.584 60.562 1 129.37 ? C5 AMP 403 G 1 HETATM 18 C C6 AMP . . . I 7 68.938 -70.821 61.453 1 129.56 ? C6 AMP 403 G 1 HETATM 19 N N6 AMP . . . I 7 70.021 -69.832 61.683 1 128.09 ? N6 AMP 403 G 1 HETATM 20 N N1 AMP . . . I 7 68.956 -71.992 62.104 1 131.42 ? N1 AMP 403 G 1 HETATM 21 C C2 AMP . . . I 7 67.988 -72.896 61.902 1 133.09 ? C2 AMP 403 G 1 HETATM 22 N N3 AMP . . . I 7 66.964 -72.711 61.066 1 133.03 ? N3 AMP 403 G 1 HETATM 23 C C4 AMP . . . I 7 66.887 -71.552 60.377 1 131.13 ? C4 AMP 403 G 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 330 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 23 #