data_5CVA # _model_server_result.job_id 1yw8B7KqzFiJXLLIDCiScQ _model_server_result.datetime_utc '2024-12-27 03:20:25' _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 5cva # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":101}' # _entry.id 5CVA # _exptl.entry_id 5CVA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 112.75 _cell.angle_gamma 90 _cell.entry_id 5CVA _cell.length_a 52.41 _cell.length_b 63.98 _cell.length_c 65.37 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5CVA _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # 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 trimeric 3 author_and_software_defined_assembly 1 PISA trimeric 3 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,G,I,J,K 1 1 D,E,F,H,L,M,N 2 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 G N N ? 4 H 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 disulf ? disulf1 A SG CYS 48 A CYS 48 1_555 C SG CYS 48 C CYS 48 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf2 D SG CYS 48 D CYS 48 1_555 F SG CYS 48 F CYS 48 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? covale ? covale1 A C CYS 48 A CYS 48 1_555 A N MSE 49 A MSE 49 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale2 A C MSE 49 A MSE 49 1_555 A N ARG 50 A ARG 50 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale3 A C GLU 58 A GLU 58 1_555 A N MSE 59 A MSE 59 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale4 A C MSE 59 A MSE 59 1_555 A N ALA 60 A ALA 60 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale5 D C CYS 48 D CYS 48 1_555 D N MSE 49 D MSE 49 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale6 D C MSE 49 D MSE 49 1_555 D N ARG 50 D ARG 50 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale7 D C GLU 58 D GLU 58 1_555 D N MSE 59 D MSE 59 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale8 D C MSE 59 D MSE 59 1_555 D N ALA 60 D ALA 60 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # 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 C1 O1 GOL sing 129 n n C1 C2 GOL sing 130 n n C1 H11 GOL sing 131 n n C1 H12 GOL sing 132 n n O1 HO1 GOL sing 133 n n C2 O2 GOL sing 134 n n C2 C3 GOL sing 135 n n C2 H2 GOL sing 136 n n O2 HO2 GOL sing 137 n n C3 O3 GOL sing 138 n n C3 H31 GOL sing 139 n n C3 H32 GOL sing 140 n n O3 HO3 GOL sing 141 n n # _atom_sites.entry_id 5CVA _atom_sites.fract_transf_matrix[1][1] 0.01908 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.008001 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01563 _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] 0.016588 _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 G 4 GOL A 1 101 1 GOL GOL . H 4 GOL F 1 101 2 GOL GOL . I 5 HOH A 1 201 69 HOH HOH . I 5 HOH A 2 202 49 HOH HOH . I 5 HOH A 3 203 43 HOH HOH . I 5 HOH A 4 204 21 HOH HOH . I 5 HOH A 5 205 61 HOH HOH . I 5 HOH A 6 206 51 HOH HOH . I 5 HOH A 7 207 30 HOH HOH . I 5 HOH A 8 208 17 HOH HOH . I 5 HOH A 9 209 7 HOH HOH . I 5 HOH A 10 210 66 HOH HOH . I 5 HOH A 11 211 23 HOH HOH . J 5 HOH B 1 101 58 HOH HOH . J 5 HOH B 2 102 37 HOH HOH . J 5 HOH B 3 103 12 HOH HOH . J 5 HOH B 4 104 2 HOH HOH . J 5 HOH B 5 105 5 HOH HOH . J 5 HOH B 6 106 25 HOH HOH . J 5 HOH B 7 107 3 HOH HOH . J 5 HOH B 8 108 32 HOH HOH . J 5 HOH B 9 109 15 HOH HOH . J 5 HOH B 10 110 8 HOH HOH . J 5 HOH B 11 111 13 HOH HOH . J 5 HOH B 12 112 9 HOH HOH . J 5 HOH B 13 113 1 HOH HOH . J 5 HOH B 14 114 22 HOH HOH . J 5 HOH B 15 115 19 HOH HOH . J 5 HOH B 16 116 26 HOH HOH . J 5 HOH B 17 117 72 HOH HOH . J 5 HOH B 18 118 41 HOH HOH . J 5 HOH B 19 119 27 HOH HOH . J 5 HOH B 20 120 42 HOH HOH . K 5 HOH C 1 101 64 HOH HOH . K 5 HOH C 2 102 63 HOH HOH . K 5 HOH C 3 103 44 HOH HOH . K 5 HOH C 4 104 28 HOH HOH . K 5 HOH C 5 105 73 HOH HOH . K 5 HOH C 6 106 24 HOH HOH . K 5 HOH C 7 107 68 HOH HOH . K 5 HOH C 8 108 56 HOH HOH . K 5 HOH C 9 109 45 HOH HOH . K 5 HOH C 10 110 11 HOH HOH . K 5 HOH C 11 111 20 HOH HOH . K 5 HOH C 12 112 40 HOH HOH . K 5 HOH C 13 113 10 HOH HOH . K 5 HOH C 14 114 48 HOH HOH . K 5 HOH C 15 115 16 HOH HOH . K 5 HOH C 16 116 35 HOH HOH . K 5 HOH C 17 117 39 HOH HOH . K 5 HOH C 18 118 29 HOH HOH . K 5 HOH C 19 119 65 HOH HOH . K 5 HOH C 20 120 67 HOH HOH . K 5 HOH C 21 121 18 HOH HOH . K 5 HOH C 22 122 62 HOH HOH . K 5 HOH C 23 123 59 HOH HOH . L 5 HOH D 1 101 57 HOH HOH . L 5 HOH D 2 102 4 HOH HOH . L 5 HOH D 3 103 38 HOH HOH . L 5 HOH D 4 104 6 HOH HOH . L 5 HOH D 5 105 33 HOH HOH . L 5 HOH D 6 106 54 HOH HOH . L 5 HOH D 7 107 50 HOH HOH . M 5 HOH E 1 101 46 HOH HOH . M 5 HOH E 2 102 74 HOH HOH . M 5 HOH E 3 103 52 HOH HOH . M 5 HOH E 4 104 70 HOH HOH . M 5 HOH E 5 105 75 HOH HOH . M 5 HOH E 6 106 53 HOH HOH . N 5 HOH F 1 201 71 HOH HOH . N 5 HOH F 2 202 55 HOH HOH . N 5 HOH F 3 203 60 HOH HOH . N 5 HOH F 4 204 47 HOH HOH . N 5 HOH F 5 205 36 HOH HOH . N 5 HOH F 6 206 34 HOH HOH . N 5 HOH F 7 207 76 HOH HOH . N 5 HOH F 8 208 14 HOH HOH . N 5 HOH F 9 209 31 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 C C1 GOL . . . H 4 4.769 36.122 9.276 1 45.34 ? C1 GOL 101 F 1 HETATM 2 O O1 GOL . . . H 4 4.008 35.194 10.026 1 49.27 ? O1 GOL 101 F 1 HETATM 3 C C2 GOL . . . H 4 3.937 37.369 8.987 1 51.28 ? C2 GOL 101 F 1 HETATM 4 O O2 GOL . . . H 4 2.636 37.225 9.526 1 53.53 ? O2 GOL 101 F 1 HETATM 5 C C3 GOL . . . H 4 4.614 38.582 9.617 1 45.81 ? C3 GOL 101 F 1 HETATM 6 O O3 GOL . . . H 4 3.807 39.716 9.377 1 47.84 ? O3 GOL 101 F 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 313 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 6 #