data_1UD0 # _model_server_result.job_id EYjvQM-JTWbBJlEZq8L68Q _model_server_result.datetime_utc '2024-10-18 16:22:34' _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 1ud0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":702}' # _entry.id 1UD0 # _exptl.entry_id 1UD0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM ION' _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 1UD0 _cell.length_a 117.479 _cell.length_b 117.479 _cell.length_c 163.777 _cell.Z_PDB 48 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1UD0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 61 2 2' # 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 dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 PISA tetrameric 4 software_defined_assembly 3 PISA tetrameric 4 software_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,H,I 1 1 C,D,F,G,J,K 2 1 C,D,F,G,J,K 3 1 A,B,E,H,I 3 2 C,D,F,G,J,K 4 1 A,B,E,H,I 4 3 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 6_555 x-y,x,z+1/6 0.5 -0.866025 0 0.866025 0.5 0 0 0 1 0 0 27.296167 3 'crystal symmetry operation' 8_666 x-y+1,-y+1,-z+1 1 0 0 0 -1 0 0 0 -1 58.7395 101.739798 163.777 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 E N N ? 2 F N N ? 2 G 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 C HIS 7 A HIS 540 1_555 A N MSE 8 A MSE 541 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale2 A C MSE 8 A MSE 541 1_555 A N LEU 9 A LEU 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale3 A C ASN 15 A ASN 548 1_555 A N MSE 16 A MSE 549 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale4 A C MSE 16 A MSE 549 1_555 A N LYS 17 A LYS 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale5 A C GLY 83 A GLY 616 1_555 A N MSE 84 A MSE 617 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale6 A C MSE 84 A MSE 617 1_555 A N PRO 85 A PRO 618 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.352 ? covale ? covale7 B C HIS 7 B HIS 540 1_555 B N MSE 8 B MSE 541 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale8 B C MSE 8 B MSE 541 1_555 B N LEU 9 B LEU 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale9 B C ASN 15 B ASN 548 1_555 B N MSE 16 B MSE 549 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale10 B C MSE 16 B MSE 549 1_555 B N LYS 17 B LYS 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale11 B C GLY 83 B GLY 616 1_555 B N MSE 84 B MSE 617 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale12 B C MSE 84 B MSE 617 1_555 B N PRO 85 B PRO 618 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.353 ? covale ? covale13 C C HIS 7 C HIS 540 1_555 C N MSE 8 C MSE 541 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale14 C C MSE 8 C MSE 541 1_555 C N LEU 9 C LEU 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale15 C C ASN 15 C ASN 548 1_555 C N MSE 16 C MSE 549 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale16 C C MSE 16 C MSE 549 1_555 C N LYS 17 C LYS 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale17 C C GLY 83 C GLY 616 1_555 C N MSE 84 C MSE 617 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale18 C C MSE 84 C MSE 617 1_555 C N PRO 85 C PRO 618 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.355 ? covale ? covale19 C C GLY 87 C GLY 620 1_555 C N MSE 88 C MSE 621 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale20 D C HIS 7 D HIS 540 1_555 D N MSE 8 D MSE 541 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale21 D C MSE 8 D MSE 541 1_555 D N LEU 9 D LEU 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale22 D C ASN 15 D ASN 548 1_555 D N MSE 16 D MSE 549 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale23 D C MSE 16 D MSE 549 1_555 D N LYS 17 D LYS 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? metalc ? metalc1 B OE2 GLU 32 B GLU 565 1_555 E NA NA . B NA 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.02 ? metalc ? metalc2 D OD1 ASN 30 D ASN 563 1_555 F NA NA . D NA 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.985 ? metalc ? metalc3 D OD1 ASP 31 D ASP 564 1_555 F NA NA . D NA 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.134 ? metalc ? metalc4 D OE2 GLU 65 D GLU 598 1_555 G NA NA . D NA 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.121 ? # _chem_comp.formula 'Na 1' _chem_comp.formula_weight 22.99 _chem_comp.id NA _chem_comp.mon_nstd_flag . _chem_comp.name 'SODIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 1UD0 _atom_sites.fract_transf_matrix[1][1] 0.008512 _atom_sites.fract_transf_matrix[1][2] 0.004914 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009829 _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] 0.006106 _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 NA B 1 701 701 NA NA . F 2 NA D 1 702 702 NA NA . G 2 NA D 1 703 703 NA NA . H 3 HOH A 1 806 806 HOH HOH . H 3 HOH A 2 809 809 HOH HOH . H 3 HOH A 3 811 811 HOH HOH . H 3 HOH A 4 812 812 HOH HOH . H 3 HOH A 5 813 813 HOH HOH . H 3 HOH A 6 815 815 HOH HOH . H 3 HOH A 7 819 819 HOH HOH . H 3 HOH A 8 823 823 HOH HOH . I 3 HOH B 1 803 803 HOH HOH . I 3 HOH B 2 810 810 HOH HOH . I 3 HOH B 3 814 814 HOH HOH . I 3 HOH B 4 816 816 HOH HOH . I 3 HOH B 5 817 817 HOH HOH . I 3 HOH B 6 818 818 HOH HOH . I 3 HOH B 7 820 820 HOH HOH . J 3 HOH C 1 802 802 HOH HOH . J 3 HOH C 2 805 805 HOH HOH . J 3 HOH C 3 808 808 HOH HOH . J 3 HOH C 4 821 821 HOH HOH . J 3 HOH C 5 822 822 HOH HOH . K 3 HOH D 1 801 801 HOH HOH . K 3 HOH D 2 804 804 HOH HOH . K 3 HOH D 3 807 807 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol NA _atom_site.label_atom_id NA _atom_site.label_comp_id NA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id F _atom_site.label_entity_id 2 _atom_site.Cartn_x -0.962 _atom_site.Cartn_y 5.441 _atom_site.Cartn_z 106.376 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 25.83 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 702 _atom_site.auth_asym_id D _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 49 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 1 #