data_7YX1 # _model_server_result.job_id 5WPd0ZwCrIBnq8MgDlj84Q _model_server_result.datetime_utc '2024-11-24 08:22:57' _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 7yx1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":301}' # _entry.id 7YX1 # _exptl.entry_id 7YX1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 582.646 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'BILIVERDINE IX ALPHA' _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 7YX1 _cell.length_a 161.329 _cell.length_b 161.329 _cell.length_c 82.165 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7YX1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 182 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 63 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F _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' 11_455 -x+y-1,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 -161.329 0 41.0825 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 D 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 8 A CYS 27 1_555 A SG CYS 113 A CYS 132 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? disulf ? disulf2 A SG CYS 41 A CYS 60 1_555 A SG CYS 165 A CYS 184 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? disulf ? disulf3 B SG CYS 8 B CYS 27 1_555 B SG CYS 113 B CYS 132 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.993 ? disulf ? disulf4 B SG CYS 41 B CYS 60 1_555 B SG CYS 165 B CYS 184 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? # _chem_comp.formula 'C33 H34 N4 O6' _chem_comp.formula_weight 582.646 _chem_comp.id BLA _chem_comp.mon_nstd_flag . _chem_comp.name 'BILIVERDINE IX ALPHA' _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 CHA C1A BLA sing 70 n n CHA C4D BLA doub 71 z n CHA HHA BLA sing 72 n n NA C1A BLA sing 73 n y NA C4A BLA sing 74 n y NA HA BLA sing 75 n n C1A C2A BLA doub 76 n y C2A C3A BLA sing 77 n y C2A CAA BLA sing 78 n n C3A C4A BLA doub 79 n y C3A CMA BLA sing 80 n n C4A CHB BLA sing 81 n n CMA HMA1 BLA sing 82 n n CMA HMA2 BLA sing 83 n n CMA HMA3 BLA sing 84 n n CAA CBA BLA sing 85 n n CAA HAA1 BLA sing 86 n n CAA HAA2 BLA sing 87 n n CBA CGA BLA sing 88 n n CBA HBA1 BLA sing 89 n n CBA HBA2 BLA sing 90 n n CGA O1A BLA doub 91 n n CGA O2A BLA sing 92 n n O2A H2A BLA sing 93 n n CHB C1B BLA doub 94 z n CHB HHB BLA sing 95 n n NB C1B BLA sing 96 n n NB C4B BLA sing 97 n n NB HB BLA sing 98 n n C1B C2B BLA sing 99 n n C2B C3B BLA doub 100 n n C2B CMB BLA sing 101 n n C3B C4B BLA sing 102 n n C3B CAB BLA sing 103 n n C4B OB BLA doub 104 n n CMB HMB1 BLA sing 105 n n CMB HMB2 BLA sing 106 n n CMB HMB3 BLA sing 107 n n CAB CBB BLA doub 108 n n CAB HAB BLA sing 109 n n CBB HBB1 BLA sing 110 n n CBB HBB2 BLA sing 111 n n NC C1C BLA sing 112 n n NC C4C BLA sing 113 n n NC HC BLA sing 114 n n C1C C2C BLA sing 115 n n C1C OC BLA doub 116 n n C2C C3C BLA doub 117 n n C2C CMC BLA sing 118 n n C3C C4C BLA sing 119 n n C3C CAC BLA sing 120 n n C4C CHD BLA doub 121 z n CMC HMC1 BLA sing 122 n n CMC HMC2 BLA sing 123 n n CMC HMC3 BLA sing 124 n n CAC CBC BLA doub 125 n n CAC HAC BLA sing 126 n n CBC HBC1 BLA sing 127 n n CBC HBC2 BLA sing 128 n n CHD C1D BLA sing 129 n n CHD HHD BLA sing 130 n n ND C1D BLA doub 131 n n ND C4D BLA sing 132 n n C1D C2D BLA sing 133 n n C2D C3D BLA doub 134 n n C2D CMD BLA sing 135 n n C3D C4D BLA sing 136 n n C3D CAD BLA sing 137 n n CMD HMD1 BLA sing 138 n n CMD HMD2 BLA sing 139 n n CMD HMD3 BLA sing 140 n n CAD CBD BLA sing 141 n n CAD HAD1 BLA sing 142 n n CAD HAD2 BLA sing 143 n n CBD CGD BLA sing 144 n n CBD HBD1 BLA sing 145 n n CBD HBD2 BLA sing 146 n n CGD O1D BLA doub 147 n n CGD O2D BLA sing 148 n n O2D H2D BLA sing 149 n n # _atom_sites.entry_id 7YX1 _atom_sites.fract_transf_matrix[1][1] 0.006199 _atom_sites.fract_transf_matrix[1][2] 0.003579 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007157 _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] 0.012171 _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 C 2 BLA A 1 301 301 BLA BLA . D 2 BLA B 1 301 301 BLA BLA . E 3 HOH A 1 401 81 HOH HOH . E 3 HOH A 2 402 85 HOH HOH . E 3 HOH A 3 403 84 HOH HOH . E 3 HOH A 4 404 40 HOH HOH . E 3 HOH A 5 405 10 HOH HOH . E 3 HOH A 6 406 79 HOH HOH . E 3 HOH A 7 407 23 HOH HOH . E 3 HOH A 8 408 9 HOH HOH . E 3 HOH A 9 409 117 HOH HOH . E 3 HOH A 10 410 8 HOH HOH . E 3 HOH A 11 411 18 HOH HOH . E 3 HOH A 12 412 27 HOH HOH . E 3 HOH A 13 413 34 HOH HOH . E 3 HOH A 14 414 60 HOH HOH . E 3 HOH A 15 415 76 HOH HOH . E 3 HOH A 16 416 50 HOH HOH . E 3 HOH A 17 417 66 HOH HOH . E 3 HOH A 18 418 13 HOH HOH . E 3 HOH A 19 419 105 HOH HOH . E 3 HOH A 20 420 120 HOH HOH . E 3 HOH A 21 421 25 HOH HOH . E 3 HOH A 22 422 49 HOH HOH . E 3 HOH A 23 423 61 HOH HOH . E 3 HOH A 24 424 75 HOH HOH . E 3 HOH A 25 425 20 HOH HOH . E 3 HOH A 26 426 7 HOH HOH . E 3 HOH A 27 427 91 HOH HOH . E 3 HOH A 28 428 39 HOH HOH . E 3 HOH A 29 429 123 HOH HOH . E 3 HOH A 30 430 72 HOH HOH . E 3 HOH A 31 431 95 HOH HOH . E 3 HOH A 32 432 46 HOH HOH . E 3 HOH A 33 433 14 HOH HOH . E 3 HOH A 34 434 12 HOH HOH . E 3 HOH A 35 435 111 HOH HOH . E 3 HOH A 36 436 82 HOH HOH . E 3 HOH A 37 437 104 HOH HOH . E 3 HOH A 38 438 98 HOH HOH . E 3 HOH A 39 439 33 HOH HOH . E 3 HOH A 40 440 48 HOH HOH . E 3 HOH A 41 441 37 HOH HOH . E 3 HOH A 42 442 69 HOH HOH . E 3 HOH A 43 443 78 HOH HOH . E 3 HOH A 44 444 57 HOH HOH . E 3 HOH A 45 445 67 HOH HOH . E 3 HOH A 46 446 88 HOH HOH . E 3 HOH A 47 447 92 HOH HOH . E 3 HOH A 48 448 86 HOH HOH . E 3 HOH A 49 449 99 HOH HOH . E 3 HOH A 50 450 1 HOH HOH . E 3 HOH A 51 451 114 HOH HOH . E 3 HOH A 52 452 124 HOH HOH . E 3 HOH A 53 453 65 HOH HOH . E 3 HOH A 54 454 93 HOH HOH . E 3 HOH A 55 455 121 HOH HOH . E 3 HOH A 56 456 115 HOH HOH . E 3 HOH A 57 457 119 HOH HOH . E 3 HOH A 58 458 103 HOH HOH . E 3 HOH A 59 459 63 HOH HOH . E 3 HOH A 60 460 62 HOH HOH . E 3 HOH A 61 461 83 HOH HOH . E 3 HOH A 62 462 21 HOH HOH . F 3 HOH B 1 401 38 HOH HOH . F 3 HOH B 2 402 24 HOH HOH . F 3 HOH B 3 403 109 HOH HOH . F 3 HOH B 4 404 90 HOH HOH . F 3 HOH B 5 405 19 HOH HOH . F 3 HOH B 6 406 44 HOH HOH . F 3 HOH B 7 407 41 HOH HOH . F 3 HOH B 8 408 17 HOH HOH . F 3 HOH B 9 409 101 HOH HOH . F 3 HOH B 10 410 26 HOH HOH . F 3 HOH B 11 411 35 HOH HOH . F 3 HOH B 12 412 47 HOH HOH . F 3 HOH B 13 413 64 HOH HOH . F 3 HOH B 14 414 108 HOH HOH . F 3 HOH B 15 415 11 HOH HOH . F 3 HOH B 16 416 16 HOH HOH . F 3 HOH B 17 417 53 HOH HOH . F 3 HOH B 18 418 73 HOH HOH . F 3 HOH B 19 419 77 HOH HOH . F 3 HOH B 20 420 32 HOH HOH . F 3 HOH B 21 421 113 HOH HOH . F 3 HOH B 22 422 94 HOH HOH . F 3 HOH B 23 423 68 HOH HOH . F 3 HOH B 24 424 55 HOH HOH . F 3 HOH B 25 425 56 HOH HOH . F 3 HOH B 26 426 96 HOH HOH . F 3 HOH B 27 427 43 HOH HOH . F 3 HOH B 28 428 70 HOH HOH . F 3 HOH B 29 429 29 HOH HOH . F 3 HOH B 30 430 58 HOH HOH . F 3 HOH B 31 431 42 HOH HOH . F 3 HOH B 32 432 15 HOH HOH . F 3 HOH B 33 433 112 HOH HOH . F 3 HOH B 34 434 97 HOH HOH . F 3 HOH B 35 435 106 HOH HOH . F 3 HOH B 36 436 110 HOH HOH . F 3 HOH B 37 437 71 HOH HOH . F 3 HOH B 38 438 52 HOH HOH . F 3 HOH B 39 439 5 HOH HOH . F 3 HOH B 40 440 74 HOH HOH . F 3 HOH B 41 441 51 HOH HOH . F 3 HOH B 42 442 100 HOH HOH . F 3 HOH B 43 443 45 HOH HOH . F 3 HOH B 44 444 36 HOH HOH . F 3 HOH B 45 445 89 HOH HOH . F 3 HOH B 46 446 116 HOH HOH . F 3 HOH B 47 447 3 HOH HOH . F 3 HOH B 48 448 122 HOH HOH . F 3 HOH B 49 449 22 HOH HOH . F 3 HOH B 50 450 80 HOH HOH . F 3 HOH B 51 451 31 HOH HOH . F 3 HOH B 52 452 102 HOH HOH . F 3 HOH B 53 453 30 HOH HOH . F 3 HOH B 54 454 28 HOH HOH . F 3 HOH B 55 455 2 HOH HOH . F 3 HOH B 56 456 59 HOH HOH . F 3 HOH B 57 457 4 HOH HOH . F 3 HOH B 58 458 54 HOH HOH . F 3 HOH B 59 459 107 HOH HOH . F 3 HOH B 60 460 6 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 CHA BLA . . . D 2 -66.6 -4.21 13.403 1 18.38 ? CHA BLA 301 B 1 HETATM 2 N NA BLA . . . D 2 -67.563 -3.135 15.372 1 22.28 ? NA BLA 301 B 1 HETATM 3 C C1A BLA . . . D 2 -67.542 -3.404 14.023 1 21.64 ? C1A BLA 301 B 1 HETATM 4 C C2A BLA . . . D 2 -68.644 -2.726 13.433 1 12.72 ? C2A BLA 301 B 1 HETATM 5 C C3A BLA . . . D 2 -69.307 -2.062 14.434 1 17.03 ? C3A BLA 301 B 1 HETATM 6 C C4A BLA . . . D 2 -68.624 -2.313 15.666 1 14.03 ? C4A BLA 301 B 1 HETATM 7 C CMA BLA . . . D 2 -70.523 -1.204 14.286 1 19.25 ? CMA BLA 301 B 1 HETATM 8 C CAA BLA . . . D 2 -68.994 -2.748 11.974 1 20.36 ? CAA BLA 301 B 1 HETATM 9 C CBA BLA . . . D 2 -70.332 -3.417 11.685 1 29.09 ? CBA BLA 301 B 1 HETATM 10 C CGA BLA . . . D 2 -70.242 -4.913 11.448 1 37.74 ? CGA BLA 301 B 1 HETATM 11 O O1A BLA . . . D 2 -69.219 -5.361 10.904 1 54.85 ? O1A BLA 301 B 1 HETATM 12 O O2A BLA . . . D 2 -71.194 -5.621 11.806 1 38.61 ? O2A BLA 301 B 1 HETATM 13 C CHB BLA . . . D 2 -68.927 -1.861 16.921 1 18.43 ? CHB BLA 301 B 1 HETATM 14 N NB BLA . . . D 2 -71.241 -2.578 16.988 1 18.76 ? NB BLA 301 B 1 HETATM 15 C C1B BLA . . . D 2 -70.103 -2.035 17.549 1 20.02 ? C1B BLA 301 B 1 HETATM 16 C C2B BLA . . . D 2 -70.37 -1.694 18.901 1 15.2 ? C2B BLA 301 B 1 HETATM 17 C C3B BLA . . . D 2 -71.733 -1.977 19.15 1 8.29 ? C3B BLA 301 B 1 HETATM 18 C C4B BLA . . . D 2 -72.254 -2.581 17.906 1 15.05 ? C4B BLA 301 B 1 HETATM 19 C CMB BLA . . . D 2 -69.399 -1.143 19.902 1 16.42 ? CMB BLA 301 B 1 HETATM 20 O OB BLA . . . D 2 -73.369 -3.023 17.704 1 27.32 ? OB BLA 301 B 1 HETATM 21 C CAB BLA . . . D 2 -72.446 -1.744 20.321 1 6.19 ? CAB BLA 301 B 1 HETATM 22 C CBB BLA . . . D 2 -73.551 -2.326 20.678 1 3.26 ? CBB BLA 301 B 1 HETATM 23 N NC BLA . . . D 2 -64.561 -3.794 18.059 1 26.43 ? NC BLA 301 B 1 HETATM 24 C C1C BLA . . . D 2 -64.27 -2.993 19.149 1 26.31 ? C1C BLA 301 B 1 HETATM 25 C C2C BLA . . . D 2 -63.052 -3.512 19.745 1 16.21 ? C2C BLA 301 B 1 HETATM 26 C C3C BLA . . . D 2 -62.613 -4.526 18.883 1 9.67 ? C3C BLA 301 B 1 HETATM 27 C C4C BLA . . . D 2 -63.415 -4.511 17.721 1 12.52 ? C4C BLA 301 B 1 HETATM 28 C CMC BLA . . . D 2 -62.375 -3.083 21.013 1 11.6 ? CMC BLA 301 B 1 HETATM 29 O OC BLA . . . D 2 -64.923 -2.048 19.513 1 36.07 ? OC BLA 301 B 1 HETATM 30 C CAC BLA . . . D 2 -61.574 -5.41 19.167 1 22.76 ? CAC BLA 301 B 1 HETATM 31 C CBC BLA . . . D 2 -60.308 -5.187 18.975 1 31.13 ? CBC BLA 301 B 1 HETATM 32 C CHD BLA . . . D 2 -63.134 -5.086 16.534 1 10.53 ? CHD BLA 301 B 1 HETATM 33 N ND BLA . . . D 2 -65.18 -4.688 15.314 1 15.63 ? ND BLA 301 B 1 HETATM 34 C C1D BLA . . . D 2 -63.931 -5.217 15.436 1 6.31 ? C1D BLA 301 B 1 HETATM 35 C C2D BLA . . . D 2 -63.581 -5.936 14.219 1 11.64 ? C2D BLA 301 B 1 HETATM 36 C C3D BLA . . . D 2 -64.575 -5.704 13.324 1 16.29 ? C3D BLA 301 B 1 HETATM 37 C C4D BLA . . . D 2 -65.516 -4.827 13.999 1 14.31 ? C4D BLA 301 B 1 HETATM 38 C CMD BLA . . . D 2 -62.359 -6.778 14.001 1 16.81 ? CMD BLA 301 B 1 HETATM 39 C CAD BLA . . . D 2 -64.713 -6.231 11.926 1 27.48 ? CAD BLA 301 B 1 HETATM 40 C CBD BLA . . . D 2 -65.337 -7.628 11.862 1 17.45 ? CBD BLA 301 B 1 HETATM 41 C CGD BLA . . . D 2 -65.536 -8.153 10.453 1 28.33 ? CGD BLA 301 B 1 HETATM 42 O O1D BLA . . . D 2 -65.558 -7.337 9.52 1 43.16 ? O1D BLA 301 B 1 HETATM 43 O O2D BLA . . . D 2 -65.673 -9.373 10.295 1 30.79 ? O2D BLA 301 B 1 # _model_server_stats.io_time_ms 54 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 219 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 43 #