data_5JW1 # _model_server_result.job_id W3wIFExRhJvyqnNGfh6KjA _model_server_result.datetime_utc '2024-11-27 19:05:15' _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 5jw1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":601}' # _entry.id 5JW1 # _exptl.entry_id 5JW1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 619.575 _entity.id 3 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 'PROTOPORPHYRIN IX CONTAINING CO' _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 90 _cell.entry_id 5JW1 _cell.length_a 120.362 _cell.length_b 132.198 _cell.length_c 180.392 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5JW1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 ? 3 E N N ? 3 J N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order 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 2 n C NAG 1 C 1 NAG A 5 NAG 2 n C NAG 2 C 2 NAG A 6 NAG 2 n D NAG 1 D 1 NAG B 4 NAG 2 n D NAG 2 D 2 NAG B 5 NAG # 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 4 A CYS 36 1_555 A SG CYS 15 A CYS 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf2 A SG CYS 5 A CYS 37 1_555 A SG CYS 128 A CYS 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf3 A SG CYS 9 A CYS 41 1_555 A SG CYS 25 A CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf4 A SG CYS 27 A CYS 59 1_555 A SG CYS 37 A CYS 69 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf5 A SG CYS 538 A CYS 570 1_555 A SG CYS 544 A CYS 576 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf6 B SG CYS 4 B CYS 36 1_555 B SG CYS 15 B CYS 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf7 B SG CYS 5 B CYS 37 1_555 B SG CYS 128 B CYS 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf8 B SG CYS 9 B CYS 41 1_555 B SG CYS 25 B CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf9 B SG CYS 27 B CYS 59 1_555 B SG CYS 37 B CYS 69 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf10 B SG CYS 538 B CYS 570 1_555 B SG CYS 544 B CYS 576 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale1 A ND2 ASN 36 A ASN 68 1_555 H C1 NAG . A NAG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale2 A ND2 ASN 113 A ASN 145 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale3 A ND2 ASN 379 A ASN 411 1_555 I C1 NAG . A NAG 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale4 B ND2 ASN 36 B ASN 68 1_555 L C1 NAG . B NAG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale5 B ND2 ASN 113 B ASN 145 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale6 B ND2 ASN 379 B ASN 411 1_555 M C1 NAG . B NAG 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale7 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale8 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? # _chem_comp.formula 'C34 H32 Co N4 O4' _chem_comp.formula_weight 619.575 _chem_comp.id COH _chem_comp.mon_nstd_flag . _chem_comp.name 'PROTOPORPHYRIN IX CONTAINING CO' _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 CO NA COH sing 160 n n CO NB COH sing 161 n n CO NC COH sing 162 n n CO ND COH sing 163 n n CHA C1A COH doub 164 n n CHA C4D COH sing 165 n n CHA HHA COH sing 166 n n CHB C4A COH sing 167 n n CHB C1B COH doub 168 n n CHB HHB COH sing 169 n n CHC C4B COH doub 170 n n CHC C1C COH sing 171 n n CHC HHC COH sing 172 n n CHD C4C COH doub 173 n n CHD C1D COH sing 174 n n CHD HHD COH sing 175 n n NA C1A COH sing 176 n n NA C4A COH doub 177 n n C1A C2A COH sing 178 n n C2A C3A COH doub 179 n n C2A CAA COH sing 180 n n C3A C4A COH sing 181 n n C3A CMA COH sing 182 n n CMA HMA1 COH sing 183 n n CMA HMA2 COH sing 184 n n CMA HMA3 COH sing 185 n n CAA CBA COH sing 186 n n CAA HAA1 COH sing 187 n n CAA HAA2 COH sing 188 n n CBA CGA COH sing 189 n n CBA HBA1 COH sing 190 n n CBA HBA2 COH sing 191 n n CGA O1A COH doub 192 n n CGA O2A COH sing 193 n n O2A H2A COH sing 194 n n NB C1B COH sing 195 n n NB C4B COH sing 196 n n C1B C2B COH sing 197 n n C2B C3B COH doub 198 n n C2B CMB COH sing 199 n n C3B C4B COH sing 200 n n C3B CAB COH sing 201 n n CMB HMB1 COH sing 202 n n CMB HMB2 COH sing 203 n n CMB HMB3 COH sing 204 n n CAB CBB COH doub 205 n n CAB HAB COH sing 206 n n CBB HBB1 COH sing 207 n n CBB HBB2 COH sing 208 n n NC C1C COH doub 209 n n NC C4C COH sing 210 n n C1C C2C COH sing 211 n n C2C C3C COH doub 212 n n C2C CMC COH sing 213 n n C3C C4C COH sing 214 n n C3C CAC COH sing 215 n n CMC HMC1 COH sing 216 n n CMC HMC2 COH sing 217 n n CMC HMC3 COH sing 218 n n CAC CBC COH doub 219 n n CAC HAC COH sing 220 n n CBC HBC1 COH sing 221 n n CBC HBC2 COH sing 222 n n ND C1D COH sing 223 n y ND C4D COH sing 224 n y C1D C2D COH doub 225 n y C2D C3D COH sing 226 n y C2D CMD COH sing 227 n n C3D C4D COH doub 228 n y C3D CAD COH sing 229 n n CMD HMD1 COH sing 230 n n CMD HMD2 COH sing 231 n n CMD HMD3 COH sing 232 n n CAD CBD COH sing 233 n n CAD HAD1 COH sing 234 n n CAD HAD2 COH sing 235 n n CBD CGD COH sing 236 n n CBD HBD1 COH sing 237 n n CBD HBD2 COH sing 238 n n CGD O1D COH doub 239 n n CGD O2D COH sing 240 n n O2D H2D COH sing 241 n n # _atom_sites.entry_id 5JW1 _atom_sites.fract_transf_matrix[1][1] 0.008308 _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] 0.007564 _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] 0.005543 _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 3 COH A 1 601 1 COH COH . F 4 CEL A 1 602 2 CEL CEL . G 5 BOG A 1 603 3 BOG BOG . H 6 NAG A 1 604 4 NAG NAG . I 6 NAG A 1 607 7 NAG NAG . J 3 COH B 1 601 1 COH COH . K 4 CEL B 1 602 2 CEL CEL . L 6 NAG B 1 603 3 NAG NAG . M 6 NAG B 1 606 6 NAG NAG . N 7 HOH A 1 701 9 HOH HOH . N 7 HOH A 2 702 10 HOH HOH . N 7 HOH A 3 703 6 HOH HOH . N 7 HOH A 4 704 14 HOH HOH . N 7 HOH A 5 705 11 HOH HOH . O 7 HOH B 1 701 8 HOH HOH . O 7 HOH B 2 702 2 HOH HOH . O 7 HOH B 3 703 4 HOH HOH . O 7 HOH B 4 704 7 HOH HOH . O 7 HOH B 5 705 13 HOH HOH . O 7 HOH B 6 706 5 HOH HOH . O 7 HOH B 7 707 12 HOH HOH . O 7 HOH B 8 708 1 HOH HOH . O 7 HOH B 9 709 3 HOH HOH . O 7 HOH B 10 710 15 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 CO CO COH . . . E 3 154.178 159.821 72.836 1 109.65 ? CO COH 601 A 1 HETATM 2 C CHA COH . . . E 3 153.534 162.168 70.411 1 90.16 ? CHA COH 601 A 1 HETATM 3 C CHB COH . . . E 3 156.56 161.941 74.195 1 89.72 ? CHB COH 601 A 1 HETATM 4 C CHC COH . . . E 3 155.231 157.335 74.939 1 97.81 ? CHC COH 601 A 1 HETATM 5 C CHD COH . . . E 3 151.69 157.765 71.623 1 65.81 ? CHD COH 601 A 1 HETATM 6 N NA COH . . . E 3 154.902 161.727 72.405 1 108.67 ? NA COH 601 A 1 HETATM 7 C C1A COH . . . E 3 154.522 162.492 71.322 1 100.95 ? C1A COH 601 A 1 HETATM 8 C C2A COH . . . E 3 155.339 163.691 71.312 1 105.69 ? C2A COH 601 A 1 HETATM 9 C C3A COH . . . E 3 156.182 163.631 72.352 1 103.76 ? C3A COH 601 A 1 HETATM 10 C C4A COH . . . E 3 155.92 162.393 73.061 1 98.03 ? C4A COH 601 A 1 HETATM 11 C CMA COH . . . E 3 157.246 164.681 72.747 1 101.38 ? CMA COH 601 A 1 HETATM 12 C CAA COH . . . E 3 155.236 164.818 70.255 1 96.07 ? CAA COH 601 A 1 HETATM 13 C CBA COH . . . E 3 154.648 166.086 70.869 1 98.35 ? CBA COH 601 A 1 HETATM 14 C CGA COH . . . E 3 153.196 166.252 70.499 1 105.11 ? CGA COH 601 A 1 HETATM 15 O O1A COH . . . E 3 152.7 167.409 70.547 1 97.12 ? O1A COH 601 A 1 HETATM 16 O O2A COH . . . E 3 152.53 165.24 70.152 1 98.83 ? O2A COH 601 A 1 HETATM 17 N NB COH . . . E 3 155.572 159.702 74.383 1 87.5 ? NB COH 601 A 1 HETATM 18 C C1B COH . . . E 3 156.573 160.625 74.611 1 91.1 ? C1B COH 601 A 1 HETATM 19 C C2B COH . . . E 3 157.639 159.976 75.349 1 93.48 ? C2B COH 601 A 1 HETATM 20 C C3B COH . . . E 3 157.276 158.696 75.557 1 97.2 ? C3B COH 601 A 1 HETATM 21 C C4B COH . . . E 3 155.967 158.507 74.949 1 95.69 ? C4B COH 601 A 1 HETATM 22 C CMB COH . . . E 3 158.933 160.705 75.785 1 83.53 ? CMB COH 601 A 1 HETATM 23 C CAB COH . . . E 3 158.033 157.553 76.29 1 75.06 ? CAB COH 601 A 1 HETATM 24 C CBB COH . . . E 3 159.253 157.663 76.828 1 67.56 ? CBB COH 601 A 1 HETATM 25 N NC COH . . . E 3 153.536 157.902 73.234 1 82.16 ? NC COH 601 A 1 HETATM 26 C C1C COH . . . E 3 154.181 157.029 74.092 1 93.47 ? C1C COH 601 A 1 HETATM 27 C C2C COH . . . E 3 153.554 155.732 73.945 1 75.68 ? C2C COH 601 A 1 HETATM 28 C C3C COH . . . E 3 152.584 155.827 73.034 1 66.76 ? C3C COH 601 A 1 HETATM 29 C C4C COH . . . E 3 152.544 157.207 72.561 1 74.84 ? C4C COH 601 A 1 HETATM 30 C CMC COH . . . E 3 153.939 154.441 74.699 1 59.45 ? CMC COH 601 A 1 HETATM 31 C CAC COH . . . E 3 151.702 154.619 72.626 1 51.12 ? CAC COH 601 A 1 HETATM 32 C CBC COH . . . E 3 150.808 154.676 71.635 1 50.36 ? CBC COH 601 A 1 HETATM 33 N ND COH . . . E 3 152.829 159.934 71.245 1 89.77 ? ND COH 601 A 1 HETATM 34 C C1D COH . . . E 3 151.854 158.977 70.97 1 70 ? C1D COH 601 A 1 HETATM 35 C C2D COH . . . E 3 151.035 159.466 69.875 1 62.27 ? C2D COH 601 A 1 HETATM 36 C C3D COH . . . E 3 151.618 160.836 69.503 1 78.57 ? C3D COH 601 A 1 HETATM 37 C C4D COH . . . E 3 152.727 161.041 70.408 1 92.06 ? C4D COH 601 A 1 HETATM 38 C CMD COH . . . E 3 149.828 158.757 69.218 1 51.59 ? CMD COH 601 A 1 HETATM 39 C CAD COH . . . E 3 151.145 161.81 68.397 1 74.78 ? CAD COH 601 A 1 HETATM 40 C CBD COH . . . E 3 152.02 161.575 67.165 1 60.82 ? CBD COH 601 A 1 HETATM 41 C CGD COH . . . E 3 152.484 162.871 66.544 1 67.39 ? CGD COH 601 A 1 HETATM 42 O O1D COH . . . E 3 151.718 163.879 66.545 1 77.84 ? O1D COH 601 A 1 HETATM 43 O O2D COH . . . E 3 153.64 162.891 66.038 1 67.35 ? O2D COH 601 A 1 # _model_server_stats.io_time_ms 24 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 271 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #