data_5KLV # _model_server_result.job_id m4lrMo12YzSgQK4rIVYATQ _model_server_result.datetime_utc '2024-11-05 06:55:03' _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 5klv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"O","auth_seq_id":502}' # _entry.id 5KLV # _exptl.entry_id 5KLV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 14 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _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 90 _cell.entry_id 5KLV _cell.length_a 153.986 _cell.length_b 153.986 _cell.length_c 592.713 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5KLV _symmetry.cell_setting ? _symmetry.Int_Tables_number 98 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 41 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details 22-meric _pdbx_struct_assembly.oligomeric_count 22 _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,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 10_665 -x+1,-y+1,z -1 0 0 0 -1 0 0 0 1 153.986 153.986 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 14 N N N ? 14 O N N ? 14 P 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 E SG CYS 144 E CYS 144 1_555 E SG CYS 160 E CYS 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf2 H SG CYS 24 H CYS 24 1_555 H SG CYS 68 H CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf3 H SG CYS 40 H CYS 40 1_555 H SG CYS 54 H CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 D SG CYS 37 D CYS 37 1_555 V CAB HEC . D HEC 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.796 ? covale ? covale2 D SG CYS 40 D CYS 40 1_555 V CAC HEC . D HEC 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.861 ? metalc ? metalc1 C NE2 HIS 83 C HIS 83 1_555 Q FE HEM . C HEM 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.934 ? metalc ? metalc2 C NE2 HIS 97 C HIS 97 1_555 R FE HEM . C HEM 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? metalc ? metalc3 C NE2 HIS 182 C HIS 182 1_555 Q FE HEM . C HEM 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.968 ? metalc ? metalc4 C NE2 HIS 196 C HIS 196 1_555 R FE HEM . C HEM 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.993 ? metalc ? metalc5 D NE2 HIS 41 D HIS 41 1_555 V FE HEC . D HEC 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? metalc ? metalc6 D SD MET 160 D MET 160 1_555 V FE HEC . D HEC 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.205 ? metalc ? metalc7 E SG CYS 139 E CYS 139 1_555 Y FE1 FES . E FES 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc8 E ND1 HIS 141 E HIS 141 1_555 Y FE2 FES . E FES 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.134 ? metalc ? metalc9 E SG CYS 158 E CYS 158 1_555 Y FE1 FES . E FES 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? metalc ? metalc10 E ND1 HIS 161 E HIS 161 1_555 Y FE2 FES . E FES 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.126 ? # _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 608 n n C1 C2 GOL sing 609 n n C1 H11 GOL sing 610 n n C1 H12 GOL sing 611 n n O1 HO1 GOL sing 612 n n C2 O2 GOL sing 613 n n C2 C3 GOL sing 614 n n C2 H2 GOL sing 615 n n O2 HO2 GOL sing 616 n n C3 O3 GOL sing 617 n n C3 H31 GOL sing 618 n n C3 H32 GOL sing 619 n n O3 HO3 GOL sing 620 n n # _atom_sites.entry_id 5KLV _atom_sites.fract_transf_matrix[1][1] 0.006494 _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] 0.006494 _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] 0.001687 _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 L 12 6PE A 1 501 2 6PE 6PE . M 13 CDL A 1 502 8 CDL CDL . N 14 GOL B 1 501 1 GOL GOL . O 14 GOL B 1 502 2 GOL GOL . P 14 GOL B 1 503 3 GOL GOL . Q 15 HEM C 1 1001 1001 HEM HEM . R 15 HEM C 1 1002 1002 HEM HEM . S 16 FNM C 1 1003 1101 FNM FNM . T 17 8PE C 1 1004 3 8PE 8PE . U 18 CL C 1 1005 4 CL CL . V 19 HEC D 1 1001 1001 HEC HEC . W 20 PEF D 1 1002 4 PEF PEF . X 13 CDL D 1 1003 7 CDL CDL . Y 21 FES E 1 1001 1001 FES FES . Z 13 CDL G 1 101 6 CDL CDL . AA 22 PX4 J 1 101 5 PX4 PX4 . BA 12 6PE K 1 101 1 6PE 6PE . CA 23 HOH A 1 601 6 HOH HOH . CA 23 HOH A 2 602 5 HOH HOH . CA 23 HOH A 3 603 48 HOH HOH . CA 23 HOH A 4 604 3 HOH HOH . CA 23 HOH A 5 605 2 HOH HOH . CA 23 HOH A 6 606 4 HOH HOH . CA 23 HOH A 7 607 1 HOH HOH . CA 23 HOH A 8 608 7 HOH HOH . DA 23 HOH B 1 601 33 HOH HOH . DA 23 HOH B 2 602 21 HOH HOH . DA 23 HOH B 3 603 10 HOH HOH . DA 23 HOH B 4 604 29 HOH HOH . DA 23 HOH B 5 605 13 HOH HOH . DA 23 HOH B 6 606 8 HOH HOH . DA 23 HOH B 7 607 9 HOH HOH . DA 23 HOH B 8 608 20 HOH HOH . DA 23 HOH B 9 609 17 HOH HOH . DA 23 HOH B 10 610 19 HOH HOH . DA 23 HOH B 11 611 18 HOH HOH . DA 23 HOH B 12 612 11 HOH HOH . DA 23 HOH B 13 613 31 HOH HOH . DA 23 HOH B 14 614 35 HOH HOH . DA 23 HOH B 15 615 22 HOH HOH . DA 23 HOH B 16 616 24 HOH HOH . DA 23 HOH B 17 617 15 HOH HOH . DA 23 HOH B 18 618 25 HOH HOH . DA 23 HOH B 19 619 27 HOH HOH . DA 23 HOH B 20 620 12 HOH HOH . DA 23 HOH B 21 621 16 HOH HOH . DA 23 HOH B 22 622 26 HOH HOH . DA 23 HOH B 23 623 23 HOH HOH . DA 23 HOH B 24 624 30 HOH HOH . DA 23 HOH B 25 625 28 HOH HOH . DA 23 HOH B 26 626 14 HOH HOH . DA 23 HOH B 27 627 32 HOH HOH . DA 23 HOH B 28 628 34 HOH HOH . EA 23 HOH C 1 1101 38 HOH HOH . EA 23 HOH C 2 1102 36 HOH HOH . EA 23 HOH C 3 1103 1102 HOH HOH . EA 23 HOH C 4 1104 37 HOH HOH . FA 23 HOH D 1 1101 40 HOH HOH . FA 23 HOH D 2 1102 39 HOH HOH . FA 23 HOH D 3 1103 42 HOH HOH . FA 23 HOH D 4 1104 41 HOH HOH . GA 23 HOH F 1 201 47 HOH HOH . GA 23 HOH F 2 202 46 HOH HOH . GA 23 HOH F 3 203 44 HOH HOH . GA 23 HOH F 4 204 43 HOH HOH . GA 23 HOH F 5 205 45 HOH HOH . HA 23 HOH I 1 101 49 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 . . . O 14 79.115 86.437 79.061 1 61.4 ? C1 GOL 502 B 1 HETATM 2 O O1 GOL . . . O 14 78.132 85.426 79.143 1 61.5 ? O1 GOL 502 B 1 HETATM 3 C C2 GOL . . . O 14 80.409 85.94 79.699 1 61.28 ? C2 GOL 502 B 1 HETATM 4 O O2 GOL . . . O 14 80.55 84.553 79.483 1 61.99 ? O2 GOL 502 B 1 HETATM 5 C C3 GOL . . . O 14 81.609 86.667 79.109 1 60.53 ? C3 GOL 502 B 1 HETATM 6 O O3 GOL . . . O 14 82.787 86.135 79.675 1 60.28 ? O3 GOL 502 B 1 HETATM 7 H H11 GOL . . . O 14 78.768 87.331 79.579 1 73.9 ? H11 GOL 502 B 1 HETATM 8 H H12 GOL . . . O 14 79.293 86.695 78.018 1 73.9 ? H12 GOL 502 B 1 HETATM 9 H HO1 GOL . . . O 14 77.282 85.768 78.793 1 74.02 ? HO1 GOL 502 B 1 HETATM 10 H H2 GOL . . . O 14 80.37 86.144 80.769 1 73.76 ? H2 GOL 502 B 1 HETATM 11 H HO2 GOL . . . O 14 80.612 84.376 78.521 1 74.6 ? HO2 GOL 502 B 1 HETATM 12 H H31 GOL . . . O 14 81.542 87.733 79.327 1 72.85 ? H31 GOL 502 B 1 HETATM 13 H H32 GOL . . . O 14 81.626 86.538 78.027 1 72.85 ? H32 GOL 502 B 1 HETATM 14 H HO3 GOL . . . O 14 83.458 86.843 79.759 1 72.56 ? HO3 GOL 502 B 1 # _model_server_stats.io_time_ms 41 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 47 _model_server_stats.query_time_ms 296 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #