data_6XHG # _model_server_result.job_id 9Jq4lyZgWllJ7VlrGt0pmg _model_server_result.datetime_utc '2024-11-15 04:41:03' _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 6xhg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":801}' # _entry.id 6XHG # _exptl.entry_id 6XHG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 584.662 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '3-[2-[(~{Z})-[5-[(4-ethenyl-3-methyl-5-oxidanylidene-pyrrol-2-ylidene)methyl]-3-(3-hydroxy-3-oxopropyl)-4-methyl-pyrrol-2-ylidene]methyl]-5-[(~{Z})-(3-ethyl-4-methyl-5-oxidanylidene-pyrrol-2-ylidene)methyl]-4-methyl-1~{H}-pyrrol-3-yl]propanoic acid' _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 100.54 _cell.angle_beta 95.55 _cell.angle_gamma 90.01 _cell.entry_id 6XHG _cell.length_a 32.22 _cell.length_b 36.13 _cell.length_c 75.49 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6XHG _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 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 ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,F 1 1 B,E,G 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 ? 2 C N N ? 2 E 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 covale ? covale1 A SG CYS 116 A CYS 636 1_555 C CAC BVX . A BVX 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.887 ? covale ? covale2 B SG CYS 116 B CYS 636 1_555 E CAC BVX . B BVX 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.879 ? # _chem_comp.formula 'C33 H36 N4 O6' _chem_comp.formula_weight 584.662 _chem_comp.id BVX _chem_comp.mon_nstd_flag . _chem_comp.name '3-[2-[(~{Z})-[5-[(4-ethenyl-3-methyl-5-oxidanylidene-pyrrol-2-ylidene)methyl]-3-(3-hydroxy-3-oxopropyl)-4-methyl-pyrrol-2-ylidene]methyl]-5-[(~{Z})-(3-ethyl-4-methyl-5-oxidanylidene-pyrrol-2-ylidene)methyl]-4-methyl-1~{H}-pyrrol-3-yl]propanoic acid' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'Biliverdine IX alpha, bound form' # 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 CBB CAB BVX doub 70 n n CAB C3B BVX sing 71 n n C3B C4B BVX sing 72 n n C3B C2B BVX doub 73 n n OB C4B BVX doub 74 n n CMB C2B BVX sing 75 n n C4B NB BVX sing 76 n n C2B C1B BVX sing 77 n n NB C1B BVX sing 78 n n C1B CHB BVX doub 79 z n CHB C4A BVX sing 80 n n CMA C3A BVX sing 81 n n C4A C3A BVX sing 82 n n C4A NA BVX doub 83 n n C3A C2A BVX doub 84 n n OC C1C BVX doub 85 n n NA C1A BVX sing 86 n n C2A C1A BVX sing 87 n n C2A CAA BVX sing 88 n n C1C NC BVX sing 89 n n C1C C2C BVX sing 90 n n C1A CHA BVX doub 91 z n CBA CAA BVX sing 92 n n CBA CGA BVX sing 93 n n CMC C2C BVX sing 94 n n NC C4C BVX sing 95 n n C2C C3C BVX doub 96 n n CGA O2A BVX doub 97 n n CGA O1A BVX sing 98 n n CHA C4D BVX sing 99 n n ND C4D BVX sing 100 n y ND C1D BVX sing 101 n y C4C C3C BVX sing 102 n n C4C CHD BVX doub 103 z n C3C CAC BVX sing 104 n n C4D C3D BVX doub 105 n y C1D CHD BVX sing 106 n n C1D C2D BVX doub 107 n y CAC CBC BVX sing 108 n n C3D C2D BVX sing 109 n y C3D CAD BVX sing 110 n n C2D CMD BVX sing 111 n n CAD CBD BVX sing 112 n n O2D CGD BVX doub 113 n n CBD CGD BVX sing 114 n n CGD O1D BVX sing 115 n n CHA H1 BVX sing 116 n n CMA H4 BVX sing 117 n n CMA H5 BVX sing 118 n n CMA H6 BVX sing 119 n n CAA H7 BVX sing 120 n n CAA H8 BVX sing 121 n n CBA H9 BVX sing 122 n n CBA H10 BVX sing 123 n n O1A H11 BVX sing 124 n n CHB H12 BVX sing 125 n n CMB H14 BVX sing 126 n n CMB H15 BVX sing 127 n n CMB H16 BVX sing 128 n n CAB H17 BVX sing 129 n n CBB H18 BVX sing 130 n n CBB H19 BVX sing 131 n n NC H20 BVX sing 132 n n CMC H21 BVX sing 133 n n CMC H22 BVX sing 134 n n CMC H23 BVX sing 135 n n CAC H24 BVX sing 136 n n CAC H25 BVX sing 137 n n CBC H26 BVX sing 138 n n CBC H27 BVX sing 139 n n CBC H28 BVX sing 140 n n CHD H29 BVX sing 141 n n ND H30 BVX sing 142 n n CMD H31 BVX sing 143 n n CMD H32 BVX sing 144 n n CMD H33 BVX sing 145 n n CAD H34 BVX sing 146 n n CAD H35 BVX sing 147 n n CBD H36 BVX sing 148 n n CBD H37 BVX sing 149 n n O1D H38 BVX sing 150 n n NB H13 BVX sing 151 n n # _atom_sites.entry_id 6XHG _atom_sites.fract_transf_matrix[1][1] 0.031037 _atom_sites.fract_transf_matrix[1][2] 0.000005 _atom_sites.fract_transf_matrix[1][3] 0.003069 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.027678 _atom_sites.fract_transf_matrix[2][3] 0.005175 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.01354 _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 BVX A 1 801 801 BVX BLA . D 3 EDO A 1 802 901 EDO EDO . E 2 BVX B 1 801 801 BVX BLA . F 4 HOH A 1 901 38 HOH HOH . F 4 HOH A 2 902 25 HOH HOH . F 4 HOH A 3 903 62 HOH HOH . F 4 HOH A 4 904 27 HOH HOH . F 4 HOH A 5 905 37 HOH HOH . F 4 HOH A 6 906 9 HOH HOH . F 4 HOH A 7 907 28 HOH HOH . F 4 HOH A 8 908 35 HOH HOH . F 4 HOH A 9 909 61 HOH HOH . F 4 HOH A 10 910 20 HOH HOH . F 4 HOH A 11 911 52 HOH HOH . F 4 HOH A 12 912 59 HOH HOH . F 4 HOH A 13 913 46 HOH HOH . F 4 HOH A 14 914 47 HOH HOH . F 4 HOH A 15 915 49 HOH HOH . F 4 HOH A 16 916 31 HOH HOH . F 4 HOH A 17 917 34 HOH HOH . F 4 HOH A 18 918 54 HOH HOH . F 4 HOH A 19 919 13 HOH HOH . F 4 HOH A 20 920 30 HOH HOH . F 4 HOH A 21 921 12 HOH HOH . F 4 HOH A 22 922 2 HOH HOH . F 4 HOH A 23 923 51 HOH HOH . F 4 HOH A 24 924 48 HOH HOH . F 4 HOH A 25 925 26 HOH HOH . F 4 HOH A 26 926 21 HOH HOH . F 4 HOH A 27 927 44 HOH HOH . F 4 HOH A 28 928 53 HOH HOH . F 4 HOH A 29 929 10 HOH HOH . F 4 HOH A 30 930 14 HOH HOH . F 4 HOH A 31 931 63 HOH HOH . F 4 HOH A 32 932 32 HOH HOH . F 4 HOH A 33 933 65 HOH HOH . F 4 HOH A 34 934 36 HOH HOH . F 4 HOH A 35 935 58 HOH HOH . G 4 HOH B 1 901 42 HOH HOH . G 4 HOH B 2 902 22 HOH HOH . G 4 HOH B 3 903 5 HOH HOH . G 4 HOH B 4 904 43 HOH HOH . G 4 HOH B 5 905 60 HOH HOH . G 4 HOH B 6 906 23 HOH HOH . G 4 HOH B 7 907 17 HOH HOH . G 4 HOH B 8 908 55 HOH HOH . G 4 HOH B 9 909 19 HOH HOH . G 4 HOH B 10 910 3 HOH HOH . G 4 HOH B 11 911 6 HOH HOH . G 4 HOH B 12 912 4 HOH HOH . G 4 HOH B 13 913 8 HOH HOH . G 4 HOH B 14 914 29 HOH HOH . G 4 HOH B 15 915 7 HOH HOH . G 4 HOH B 16 916 56 HOH HOH . G 4 HOH B 17 917 18 HOH HOH . G 4 HOH B 18 918 33 HOH HOH . G 4 HOH B 19 919 11 HOH HOH . G 4 HOH B 20 920 45 HOH HOH . G 4 HOH B 21 921 16 HOH HOH . G 4 HOH B 22 922 24 HOH HOH . G 4 HOH B 23 923 57 HOH HOH . G 4 HOH B 24 924 1 HOH HOH . G 4 HOH B 25 925 40 HOH HOH . G 4 HOH B 26 926 50 HOH HOH . G 4 HOH B 27 927 15 HOH HOH . G 4 HOH B 28 928 39 HOH HOH . G 4 HOH B 29 929 64 HOH HOH . G 4 HOH B 30 930 41 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 BVX . . . C 2 -17.975 7.105 29.133 1 27.29 ? CHA BVX 801 A 1 HETATM 2 N NA BVX . . . C 2 -18.922 6.882 26.733 1 30.5 ? NA BVX 801 A 1 HETATM 3 C C1A BVX . . . C 2 -18.061 6.543 27.713 1 27.6 ? C1A BVX 801 A 1 HETATM 4 C C2A BVX . . . C 2 -17.224 5.569 27.216 1 29.68 ? C2A BVX 801 A 1 HETATM 5 C C3A BVX . . . C 2 -17.58 5.327 25.923 1 30.86 ? C3A BVX 801 A 1 HETATM 6 C C4A BVX . . . C 2 -18.651 6.157 25.625 1 31.76 ? C4A BVX 801 A 1 HETATM 7 C CMA BVX . . . C 2 -16.882 4.306 25.03 1 29.61 ? CMA BVX 801 A 1 HETATM 8 C CAA BVX . . . C 2 -16.083 4.907 27.987 1 27.5 ? CAA BVX 801 A 1 HETATM 9 C CBA BVX . . . C 2 -14.831 5.761 27.76 1 33.44 ? CBA BVX 801 A 1 HETATM 10 C CGA BVX . . . C 2 -14.066 5.987 29.065 1 41.99 ? CGA BVX 801 A 1 HETATM 11 O O1A BVX . . . C 2 -14.427 5.402 30.121 1 44.72 ? O1A BVX 801 A 1 HETATM 12 O O2A BVX . . . C 2 -13.07 6.758 29.081 1 40.39 ? O2A BVX 801 A 1 HETATM 13 C CHB BVX . . . C 2 -19.463 6.318 24.326 1 29.97 ? CHB BVX 801 A 1 HETATM 14 N NB BVX . . . C 2 -19.326 4.268 23.077 1 29.8 ? NB BVX 801 A 1 HETATM 15 C C1B BVX . . . C 2 -19.381 5.613 23.206 1 26.23 ? C1B BVX 801 A 1 HETATM 16 C C2B BVX . . . C 2 -19.382 6.154 21.94 1 25.25 ? C2B BVX 801 A 1 HETATM 17 C C3B BVX . . . C 2 -19.314 5.149 21.046 1 23.12 ? C3B BVX 801 A 1 HETATM 18 C C4B BVX . . . C 2 -19.272 3.969 21.752 1 34.15 ? C4B BVX 801 A 1 HETATM 19 C CMB BVX . . . C 2 -19.453 7.637 21.597 1 21.97 ? CMB BVX 801 A 1 HETATM 20 O OB BVX . . . C 2 -19.207 2.876 21.294 1 30.7 ? OB BVX 801 A 1 HETATM 21 C CAB BVX . . . C 2 -19.278 5.32 19.526 1 22.64 ? CAB BVX 801 A 1 HETATM 22 C CBB BVX . . . C 2 -19.742 4.383 18.727 1 21.77 ? CBB BVX 801 A 1 HETATM 23 N NC BVX . . . C 2 -22.7 9.62 28.07 1 29.97 ? NC BVX 801 A 1 HETATM 24 C C1C BVX . . . C 2 -23.736 10.166 27.375 1 31.92 ? C1C BVX 801 A 1 HETATM 25 C C2C BVX . . . C 2 -24.529 10.848 28.263 1 36.67 ? C2C BVX 801 A 1 HETATM 26 C C3C BVX . . . C 2 -23.988 10.72 29.488 1 33.33 ? C3C BVX 801 A 1 HETATM 27 C C4C BVX . . . C 2 -22.846 9.959 29.371 1 30.03 ? C4C BVX 801 A 1 HETATM 28 C CMC BVX . . . C 2 -25.806 11.617 27.924 1 38.6 ? CMC BVX 801 A 1 HETATM 29 O OC BVX . . . C 2 -23.932 10.078 26.21 1 29.21 ? OC BVX 801 A 1 HETATM 30 C CAC BVX . . . C 2 -24.555 11.324 30.775 1 38.9 ? CAC BVX 801 A 1 HETATM 31 C CBC BVX . . . C 2 -23.76 12.519 31.297 1 48.35 ? CBC BVX 801 A 1 HETATM 32 C CHD BVX . . . C 2 -22.073 9.636 30.395 1 29.88 ? CHD BVX 801 A 1 HETATM 33 N ND BVX . . . C 2 -20.087 8.292 29.3 1 26.81 ? ND BVX 801 A 1 HETATM 34 C C1D BVX . . . C 2 -20.724 8.901 30.348 1 29.09 ? C1D BVX 801 A 1 HETATM 35 C C2D BVX . . . C 2 -19.945 8.751 31.467 1 25.4 ? C2D BVX 801 A 1 HETATM 36 C C3D BVX . . . C 2 -18.837 8.067 31.123 1 29.59 ? C3D BVX 801 A 1 HETATM 37 C C4D BVX . . . C 2 -18.916 7.778 29.779 1 28.64 ? C4D BVX 801 A 1 HETATM 38 C CMD BVX . . . C 2 -20.282 9.284 32.859 1 19.5 ? CMD BVX 801 A 1 HETATM 39 C CAD BVX . . . C 2 -17.7 7.684 32.071 1 30.36 ? CAD BVX 801 A 1 HETATM 40 C CBD BVX . . . C 2 -17.674 6.174 32.325 1 31.15 ? CBD BVX 801 A 1 HETATM 41 C CGD BVX . . . C 2 -19.03 5.7 32.839 1 31.05 ? CGD BVX 801 A 1 HETATM 42 O O1D BVX . . . C 2 -19.561 6.253 33.834 1 35.98 ? O1D BVX 801 A 1 HETATM 43 O O2D BVX . . . C 2 -19.613 4.746 32.269 1 32.7 ? O2D BVX 801 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 244 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 43 #