data_6XHG # _model_server_result.job_id SEPCW8atWCvcwLGMUHMN4Q _model_server_result.datetime_utc '2024-11-15 04:34:32' _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":"E","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 . . . E 2 -17.199 -10.829 -25.836 1 37.67 ? CHA BVX 801 B 1 HETATM 2 N NA BVX . . . E 2 -16.264 -10.944 -23.423 1 39.43 ? NA BVX 801 B 1 HETATM 3 C C1A BVX . . . E 2 -17.114 -11.33 -24.395 1 39.55 ? C1A BVX 801 B 1 HETATM 4 C C2A BVX . . . E 2 -17.951 -12.289 -23.873 1 44.09 ? C2A BVX 801 B 1 HETATM 5 C C3A BVX . . . E 2 -17.6 -12.479 -22.57 1 38.99 ? C3A BVX 801 B 1 HETATM 6 C C4A BVX . . . E 2 -16.535 -11.634 -22.294 1 35.38 ? C4A BVX 801 B 1 HETATM 7 C CMA BVX . . . E 2 -18.3 -13.471 -21.647 1 40.19 ? CMA BVX 801 B 1 HETATM 8 C CAA BVX . . . E 2 -19.083 -12.988 -24.636 1 39.19 ? CAA BVX 801 B 1 HETATM 9 C CBA BVX . . . E 2 -20.347 -12.138 -24.463 1 41.21 ? CBA BVX 801 B 1 HETATM 10 C CGA BVX . . . E 2 -21.112 -11.96 -25.778 1 44.63 ? CGA BVX 801 B 1 HETATM 11 O O1A BVX . . . E 2 -20.757 -12.578 -26.817 1 45.78 ? O1A BVX 801 B 1 HETATM 12 O O2A BVX . . . E 2 -22.105 -11.186 -25.822 1 41.24 ? O2A BVX 801 B 1 HETATM 13 C CHB BVX . . . E 2 -15.738 -11.422 -20.991 1 33.97 ? CHB BVX 801 B 1 HETATM 14 N NB BVX . . . E 2 -15.866 -13.47 -19.756 1 33.39 ? NB BVX 801 B 1 HETATM 15 C C1B BVX . . . E 2 -15.831 -12.121 -19.868 1 31.04 ? C1B BVX 801 B 1 HETATM 16 C C2B BVX . . . E 2 -15.862 -11.595 -18.596 1 31.61 ? C2B BVX 801 B 1 HETATM 17 C C3B BVX . . . E 2 -15.933 -12.615 -17.719 1 25.4 ? C3B BVX 801 B 1 HETATM 18 C C4B BVX . . . E 2 -15.941 -13.788 -18.441 1 33.44 ? C4B BVX 801 B 1 HETATM 19 C CMB BVX . . . E 2 -15.829 -10.114 -18.227 1 28.33 ? CMB BVX 801 B 1 HETATM 20 O OB BVX . . . E 2 -15.995 -14.888 -18.006 1 27.61 ? OB BVX 801 B 1 HETATM 21 C CAB BVX . . . E 2 -16.001 -12.468 -16.198 1 22.13 ? CAB BVX 801 B 1 HETATM 22 C CBB BVX . . . E 2 -15.542 -13.421 -15.416 1 24.03 ? CBB BVX 801 B 1 HETATM 23 N NC BVX . . . E 2 -12.556 -8.37 -24.856 1 38 ? NC BVX 801 B 1 HETATM 24 C C1C BVX . . . E 2 -11.547 -7.831 -24.123 1 35.79 ? C1C BVX 801 B 1 HETATM 25 C C2C BVX . . . E 2 -10.741 -7.117 -24.971 1 37.86 ? C2C BVX 801 B 1 HETATM 26 C C3C BVX . . . E 2 -11.248 -7.222 -26.215 1 38.28 ? C3C BVX 801 B 1 HETATM 27 C C4C BVX . . . E 2 -12.378 -8.002 -26.143 1 36.45 ? C4C BVX 801 B 1 HETATM 28 C CMC BVX . . . E 2 -9.486 -6.341 -24.569 1 35.49 ? CMC BVX 801 B 1 HETATM 29 O OC BVX . . . E 2 -11.387 -7.947 -22.956 1 36.84 ? OC BVX 801 B 1 HETATM 30 C CAC BVX . . . E 2 -10.669 -6.584 -27.482 1 41.06 ? CAC BVX 801 B 1 HETATM 31 C CBC BVX . . . E 2 -11.473 -5.395 -28.005 1 47.09 ? CBC BVX 801 B 1 HETATM 32 C CHD BVX . . . E 2 -13.131 -8.317 -27.18 1 37.17 ? CHD BVX 801 B 1 HETATM 33 N ND BVX . . . E 2 -15.097 -9.636 -26.049 1 40.34 ? ND BVX 801 B 1 HETATM 34 C C1D BVX . . . E 2 -14.476 -9.054 -27.117 1 40.04 ? C1D BVX 801 B 1 HETATM 35 C C2D BVX . . . E 2 -15.257 -9.251 -28.227 1 34.84 ? C2D BVX 801 B 1 HETATM 36 C C3D BVX . . . E 2 -16.351 -9.936 -27.856 1 35.57 ? C3D BVX 801 B 1 HETATM 37 C C4D BVX . . . E 2 -16.262 -10.176 -26.506 1 39.2 ? C4D BVX 801 B 1 HETATM 38 C CMD BVX . . . E 2 -14.933 -8.768 -29.638 1 31.49 ? CMD BVX 801 B 1 HETATM 39 C CAD BVX . . . E 2 -17.496 -10.365 -28.775 1 34.1 ? CAD BVX 801 B 1 HETATM 40 C CBD BVX . . . E 2 -17.476 -11.882 -28.981 1 38.4 ? CBD BVX 801 B 1 HETATM 41 C CGD BVX . . . E 2 -16.113 -12.311 -29.522 1 41.79 ? CGD BVX 801 B 1 HETATM 42 O O1D BVX . . . E 2 -15.652 -11.76 -30.552 1 42.66 ? O1D BVX 801 B 1 HETATM 43 O O2D BVX . . . E 2 -15.449 -13.212 -28.944 1 41.09 ? O2D BVX 801 B 1 # _model_server_stats.io_time_ms 30 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 328 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #