data_5NMI # _model_server_result.job_id iQUs60JoaNg4eIMtdhlndA _model_server_result.datetime_utc '2024-11-27 03:55:41' _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 5nmi # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"CA","auth_seq_id":501}' # _entry.id 5NMI # _exptl.entry_id 5NMI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 618.503 _entity.id 15 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'HEME C' _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 90 _cell.angle_gamma 120 _cell.entry_id 5NMI _cell.length_a 129.477 _cell.length_b 129.477 _cell.length_c 720.294 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5NMI _symmetry.cell_setting ? _symmetry.Int_Tables_number 170 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details 22-meric _pdbx_struct_assembly.oligomeric_count 22 _pdbx_struct_assembly.details 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,IA,JA,KA,LA,MA,NA,OA,PA,QA _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 ? 15 CA N N ? 15 OA 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 222 E CYS 144 1_555 E SG CYS 238 E CYS 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf2 H SG CYS 37 H CYS 24 1_555 H SG CYS 81 H CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf3 H SG CYS 53 H CYS 40 1_555 H SG CYS 67 H CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf4 S SG CYS 37 U CYS 24 1_555 S SG CYS 81 U CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf5 S SG CYS 53 U CYS 40 1_555 S SG CYS 67 U CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? metalc ? metalc1 C NE2 HIS 76 C HIS 83 1_555 W FE HEM . C HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.918 ? metalc ? metalc2 C NE2 HIS 90 C HIS 97 1_555 X FE HEM . C HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.887 ? metalc ? metalc3 C NE2 HIS 175 C HIS 182 1_555 W FE HEM . C HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.886 ? metalc ? metalc4 C NE2 HIS 189 C HIS 196 1_555 X FE HEM . C HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.927 ? covale ? covale1 D SG CYS 36 D CYS 37 1_555 CA CAB HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.624 ? covale ? covale2 D SG CYS 39 D CYS 40 1_555 CA CAC HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.665 ? metalc ? metalc5 D NE2 HIS 40 D HIS 41 1_555 CA FE HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.847 ? metalc ? metalc6 D SD MET 159 D MET 160 1_555 CA FE HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? metalc ? metalc7 E SG CYS 217 E CYS 139 1_555 FA FE1 FES . E FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc8 E ND1 HIS 219 E HIS 141 1_555 FA FE2 FES . E FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.878 ? metalc ? metalc9 E SG CYS 236 E CYS 158 1_555 FA FE1 FES . E FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc10 E ND1 HIS 239 E HIS 161 1_555 FA FE2 FES . E FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.877 ? metalc ? metalc11 N NE2 HIS 76 P HIS 83 1_555 IA FE HEM . P HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.81 ? metalc ? metalc12 N NE2 HIS 90 P HIS 97 1_555 JA FE HEM . P HEM 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.928 ? metalc ? metalc13 N NE2 HIS 175 P HIS 182 1_555 IA FE HEM . P HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.764 ? metalc ? metalc14 N NE2 HIS 189 P HIS 196 1_555 JA FE HEM . P HEM 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.894 ? covale ? covale3 O SG CYS 36 Q CYS 37 1_555 OA CAB HEC . Q HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.626 ? covale ? covale4 O SG CYS 39 Q CYS 40 1_555 OA CAC HEC . Q HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.678 ? metalc ? metalc15 O NE2 HIS 40 Q HIS 41 1_555 OA FE HEC . Q HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.861 ? metalc ? metalc16 O SD MET 159 Q MET 160 1_555 OA FE HEC . Q HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.24 ? # _chem_comp.formula 'C34 H34 Fe N4 O4' _chem_comp.formula_weight 618.503 _chem_comp.id HEC _chem_comp.mon_nstd_flag . _chem_comp.name 'HEME C' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 5NMI _atom_sites.fract_transf_matrix[1][1] 0.007723 _atom_sites.fract_transf_matrix[1][2] 0.004459 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008918 _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] 0.001388 _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 W 11 HEM C 1 501 501 HEM HEM . X 11 HEM C 1 502 502 HEM HEM . Y 12 MJM C 1 503 503 MJM MJM . Z 13 PEE C 1 504 504 PEE PEE . AA 14 CDL C 1 505 505 CDL CDL . BA 14 CDL C 1 506 501 CDL CDL . CA 15 HEC D 1 501 501 HEC HEC . DA 13 PEE D 1 502 502 PEE PEE . EA 14 CDL D 1 503 503 CDL CDL . FA 16 FES E 1 501 501 FES FES . GA 13 PEE E 1 502 502 PEE PEE . HA 14 CDL P 1 401 503 CDL CDL . IA 11 HEM P 1 402 501 HEM HEM . JA 11 HEM P 1 403 502 HEM HEM . KA 12 MJM P 1 404 503 MJM MJM . LA 13 PEE P 1 405 504 PEE PEE . MA 14 CDL P 1 406 505 CDL CDL . NA 14 CDL P 1 407 501 CDL CDL . OA 15 HEC Q 1 501 501 HEC HEC . PA 13 PEE R 1 201 502 PEE PEE . QA 13 PEE R 1 202 502 PEE PEE . # 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 FE FE HEC . . . CA 15 12.565 -20.736 -28.457 1 86.56 ? FE HEC 501 D 1 HETATM 2 C CHA HEC . . . CA 15 10.88 -18.713 -26.268 1 68.99 ? CHA HEC 501 D 1 HETATM 3 C CHB HEC . . . CA 15 15.346 -20.65 -26.356 1 94.51 ? CHB HEC 501 D 1 HETATM 4 C CHC HEC . . . CA 15 14.146 -22.914 -30.504 1 79.54 ? CHC HEC 501 D 1 HETATM 5 C CHD HEC . . . CA 15 9.901 -20.571 -30.7 1 66.34 ? CHD HEC 501 D 1 HETATM 6 N NA HEC . . . CA 15 13.033 -19.849 -26.633 1 77.27 ? NA HEC 501 D 1 HETATM 7 C C1A HEC . . . CA 15 12.243 -19.074 -25.899 1 74.44 ? C1A HEC 501 D 1 HETATM 8 C C2A HEC . . . CA 15 12.839 -18.574 -24.653 1 76.53 ? C2A HEC 501 D 1 HETATM 9 C C3A HEC . . . CA 15 14.182 -19.127 -24.673 1 78.81 ? C3A HEC 501 D 1 HETATM 10 C C4A HEC . . . CA 15 14.174 -19.898 -25.931 1 80.77 ? C4A HEC 501 D 1 HETATM 11 C CMA HEC . . . CA 15 15.253 -18.958 -23.638 1 84.34 ? CMA HEC 501 D 1 HETATM 12 C CAA HEC . . . CA 15 12.264 -17.642 -23.642 1 79.94 ? CAA HEC 501 D 1 HETATM 13 C CBA HEC . . . CA 15 11.625 -18.276 -22.432 1 86.49 ? CBA HEC 501 D 1 HETATM 14 C CGA HEC . . . CA 15 11.382 -17.127 -21.469 1 99.62 ? CGA HEC 501 D 1 HETATM 15 O O1A HEC . . . CA 15 10.707 -16.139 -21.845 1 109.1 ? O1A HEC 501 D 1 HETATM 16 O O2A HEC . . . CA 15 11.879 -17.161 -20.327 1 114.49 ? O2A HEC 501 D 1 HETATM 17 N NB HEC . . . CA 15 14.436 -21.637 -28.43 1 88.93 ? NB HEC 501 D 1 HETATM 18 C C1B HEC . . . CA 15 15.432 -21.485 -27.553 1 98.93 ? C1B HEC 501 D 1 HETATM 19 C C2B HEC . . . CA 15 16.642 -22.277 -27.816 1 102.56 ? C2B HEC 501 D 1 HETATM 20 C C3B HEC . . . CA 15 16.267 -22.942 -29.066 1 104.4 ? C3B HEC 501 D 1 HETATM 21 C C4B HEC . . . CA 15 14.894 -22.49 -29.326 1 86.94 ? C4B HEC 501 D 1 HETATM 22 C CMB HEC . . . CA 15 17.907 -22.326 -27.015 1 91.02 ? CMB HEC 501 D 1 HETATM 23 C CAB HEC . . . CA 15 17.042 -23.873 -29.925 1 129.33 ? CAB HEC 501 D 1 HETATM 24 C CBB HEC . . . CA 15 18.418 -24.375 -29.597 1 147.24 ? CBB HEC 501 D 1 HETATM 25 N NC HEC . . . CA 15 12.094 -21.61 -30.298 1 73.6 ? NC HEC 501 D 1 HETATM 26 C C1C HEC . . . CA 15 12.849 -22.466 -30.973 1 83.15 ? C1C HEC 501 D 1 HETATM 27 C C2C HEC . . . CA 15 12.337 -22.95 -32.27 1 94.76 ? C2C HEC 501 D 1 HETATM 28 C C3C HEC . . . CA 15 11.054 -22.255 -32.347 1 88.84 ? C3C HEC 501 D 1 HETATM 29 C C4C HEC . . . CA 15 11.018 -21.442 -31.08 1 72.06 ? C4C HEC 501 D 1 HETATM 30 C CMC HEC . . . CA 15 12.949 -23.907 -33.248 1 107.63 ? CMC HEC 501 D 1 HETATM 31 C CAC HEC . . . CA 15 10.071 -22.287 -33.491 1 106.08 ? CAC HEC 501 D 1 HETATM 32 C CBC HEC . . . CA 15 10.075 -23.177 -34.739 1 108.01 ? CBC HEC 501 D 1 HETATM 33 N ND HEC . . . CA 15 10.701 -19.82 -28.475 1 75.18 ? ND HEC 501 D 1 HETATM 34 C C1D HEC . . . CA 15 9.774 -19.834 -29.436 1 74.7 ? C1D HEC 501 D 1 HETATM 35 C C2D HEC . . . CA 15 8.568 -19.05 -29.103 1 79.99 ? C2D HEC 501 D 1 HETATM 36 C C3D HEC . . . CA 15 8.864 -18.503 -27.788 1 77.49 ? C3D HEC 501 D 1 HETATM 37 C C4D HEC . . . CA 15 10.196 -19.049 -27.515 1 72.84 ? C4D HEC 501 D 1 HETATM 38 C CMD HEC . . . CA 15 7.32 -18.836 -29.89 1 74.77 ? CMD HEC 501 D 1 HETATM 39 C CAD HEC . . . CA 15 8.01 -17.62 -26.924 1 84.88 ? CAD HEC 501 D 1 HETATM 40 C CBD HEC . . . CA 15 7.407 -18.497 -25.835 1 90.09 ? CBD HEC 501 D 1 HETATM 41 C CGD HEC . . . CA 15 6.457 -17.72 -24.949 1 84.39 ? CGD HEC 501 D 1 HETATM 42 O O1D HEC . . . CA 15 5.412 -18.294 -24.566 1 66.96 ? O1D HEC 501 D 1 HETATM 43 O O2D HEC . . . CA 15 6.744 -16.545 -24.624 1 72.18 ? O2D HEC 501 D 1 # _model_server_stats.io_time_ms 31 _model_server_stats.parse_time_ms 50 _model_server_stats.create_model_time_ms 60 _model_server_stats.query_time_ms 479 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 43 #