data_6XI0
#
_model_server_result.job_id            N52dbJp37kz0RM9gkLiRFA 
_model_server_result.datetime_utc      '2024-10-15 11:27:11' 
_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          6xi0 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":501}' 
#
_entry.id    6XI0 
#
_exptl.entry_id    6XI0 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              618.503 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'HEME C' 
_entity.pdbx_number_of_molecules    6 
_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            6XI0 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6XI0 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_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,G,H,I,J,K,L,M,N 
_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    ? 
_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
? 5 H N N 
? 5 I N N 
? 5 J N N 
? 5 K N N 
? 5 L N N 
? 5 M 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 138 E CYS 138 1_555 A SG CYS 155 E CYS 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf2 F SG CYS 138 R CYS 138 1_555 F SG CYS 155 R CYS 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
covale ? covale1 C SG CYS 55 D CYS 34 1_555 J CAB HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.78 ? 
covale ? covale2 C SG CYS 58 D CYS 37 1_555 J CAC HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.858 ? 
covale ? covale3 E SG CYS 55 Q CYS 34 1_555 M CAB HEC . Q HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.78 ? 
covale ? covale4 E SG CYS 58 Q CYS 37 1_555 M CAC HEC . Q HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.858 ? 
metalc ? metalc1 A SG CYS 133 E CYS 133 1_555 G FE1 FES . E FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? 
metalc ? metalc2 A ND1 HIS 135 E HIS 135 1_555 G FE2 FES . E FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.133 ? 
metalc ? metalc3 A SG CYS 153 E CYS 153 1_555 G FE1 FES . E FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? 
metalc ? metalc4 A ND1 HIS 156 E HIS 156 1_555 G FE2 FES . E FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.133 ? 
metalc ? metalc5 B NE2 HIS 97 C HIS 97 1_555 H FE HEC . C HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.96 ? 
metalc ? metalc6 B NE2 HIS 111 C HIS 111 1_555 I FE HEC . C HEC 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? 
metalc ? metalc7 B NE2 HIS 198 C HIS 198 1_555 H FE HEC . C HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
metalc ? metalc8 B NE2 HIS 212 C HIS 212 1_555 I FE HEC . C HEC 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? 
metalc ? metalc9 C NE2 HIS 59 D HIS 38 1_555 J FE HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.953 ? 
metalc ? metalc10 C SD MET 204 D MET 183 1_555 J FE HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.141 ? 
metalc ? metalc11 D NE2 HIS 97 P HIS 97 1_555 K FE HEC . P HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.96 ? 
metalc ? metalc12 D NE2 HIS 111 P HIS 111 1_555 L FE HEC . P HEC 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? 
metalc ? metalc13 D NE2 HIS 198 P HIS 198 1_555 K FE HEC . P HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
metalc ? metalc14 D NE2 HIS 212 P HIS 212 1_555 L FE HEC . P HEC 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? 
metalc ? metalc15 E NE2 HIS 59 Q HIS 38 1_555 M FE HEC . Q HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.953 ? 
metalc ? metalc16 E SD MET 204 Q MET 183 1_555 M FE HEC . Q HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.141 ? 
metalc ? metalc17 F SG CYS 133 R CYS 133 1_555 N FE1 FES . R FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? 
metalc ? metalc18 F ND1 HIS 135 R HIS 135 1_555 N FE2 FES . R FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.133 ? 
metalc ? metalc19 F SG CYS 153 R CYS 153 1_555 N FE1 FES . R FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.291 ? 
metalc ? metalc20 F ND1 HIS 156 R HIS 156 1_555 N FE2 FES . R FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.133 ? 
#
_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                     6XI0 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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
G 4 FES E 1 501 501 FES FES . 
H 5 HEC C 1 501 501 HEC HEM . 
I 5 HEC C 1 502 502 HEC HEM . 
J 5 HEC D 1 501 501 HEC HEC . 
K 5 HEC P 1 501 501 HEC HEM . 
L 5 HEC P 1 502 502 HEC HEM . 
M 5 HEC Q 1 501 501 HEC HEC . 
N 4 FES R 1 501 501 FES FES . 
#
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 . . . M 5 188.086 171.283 132.83 1 43.38 ? FE HEC 501 Q 1 
HETATM 2 C CHA HEC . . . M 5 188.882 168.563 134.794 1 48.8 ? CHA HEC 501 Q 1 
HETATM 3 C CHB HEC . . . M 5 189.007 173.373 135.397 1 48.31 ? CHB HEC 501 Q 1 
HETATM 4 C CHC HEC . . . M 5 187.699 173.974 130.764 1 48.97 ? CHC HEC 501 Q 1 
HETATM 5 C CHD HEC . . . M 5 187.198 169.181 130.247 1 47.75 ? CHD HEC 501 Q 1 
HETATM 6 N NA HEC . . . M 5 188.874 171.021 134.707 1 48.48 ? NA HEC 501 Q 1 
HETATM 7 C C1A HEC . . . M 5 188.989 169.811 135.363 1 48.54 ? C1A HEC 501 Q 1 
HETATM 8 C C2A HEC . . . M 5 189.245 170.071 136.76 1 47.93 ? C2A HEC 501 Q 1 
HETATM 9 C C3A HEC . . . M 5 189.283 171.398 136.93 1 48.12 ? C3A HEC 501 Q 1 
HETATM 10 C C4A HEC . . . M 5 189.049 172.019 135.644 1 48.41 ? C4A HEC 501 Q 1 
HETATM 11 C CMA HEC . . . M 5 189.524 172.176 138.24 1 48.4 ? CMA HEC 501 Q 1 
HETATM 12 C CAA HEC . . . M 5 189.43 168.974 137.83 1 48.42 ? CAA HEC 501 Q 1 
HETATM 13 C CBA HEC . . . M 5 190.893 168.569 137.941 1 48.39 ? CBA HEC 501 Q 1 
HETATM 14 C CGA HEC . . . M 5 191.029 167.516 139.008 1 47.91 ? CGA HEC 501 Q 1 
HETATM 15 O O1A HEC . . . M 5 190.194 166.575 139.036 1 47.7 ? O1A HEC 501 Q 1 
HETATM 16 O O2A HEC . . . M 5 191.979 167.614 139.824 1 47.85 ? O2A HEC 501 Q 1 
HETATM 17 N NB HEC . . . M 5 188.368 173.296 133.03 1 47.19 ? NB HEC 501 Q 1 
HETATM 18 C C1B HEC . . . M 5 188.641 173.961 134.21 1 47.73 ? C1B HEC 501 Q 1 
HETATM 19 C C2B HEC . . . M 5 188.478 175.38 133.972 1 48.26 ? C2B HEC 501 Q 1 
HETATM 20 C C3B HEC . . . M 5 188.121 175.549 132.694 1 48.35 ? C3B HEC 501 Q 1 
HETATM 21 C C4B HEC . . . M 5 188.042 174.237 132.076 1 48.22 ? C4B HEC 501 Q 1 
HETATM 22 C CMB HEC . . . M 5 188.671 176.503 135.019 1 48.15 ? CMB HEC 501 Q 1 
HETATM 23 C CAB HEC . . . M 5 187.829 176.897 131.991 1 43.38 ? CAB HEC 501 Q 1 
HETATM 24 C CBB HEC . . . M 5 189.032 177.865 132.071 1 48.18 ? CBB HEC 501 Q 1 
HETATM 25 N NC HEC . . . M 5 187.523 171.529 130.877 1 48.42 ? NC HEC 501 Q 1 
HETATM 26 C C1C HEC . . . M 5 187.473 172.732 130.203 1 48.81 ? C1C HEC 501 Q 1 
HETATM 27 C C2C HEC . . . M 5 187.03 172.474 128.845 1 48.11 ? C2C HEC 501 Q 1 
HETATM 28 C C3C HEC . . . M 5 187.045 171.137 128.666 1 48.17 ? C3C HEC 501 Q 1 
HETATM 29 C C4C HEC . . . M 5 187.252 170.529 129.967 1 48.05 ? C4C HEC 501 Q 1 
HETATM 30 C CMC HEC . . . M 5 187.014 173.57 127.749 1 48.24 ? CMC HEC 501 Q 1 
HETATM 31 C CAC HEC . . . M 5 186.669 170.304 127.413 1 43.38 ? CAC HEC 501 Q 1 
HETATM 32 C CBC HEC . . . M 5 187.232 170.848 126.081 1 48.09 ? CBC HEC 501 Q 1 
HETATM 33 N ND HEC . . . M 5 188.04 169.198 132.562 1 47.98 ? ND HEC 501 Q 1 
HETATM 34 C C1D HEC . . . M 5 187.647 168.561 131.389 1 47.89 ? C1D HEC 501 Q 1 
HETATM 35 C C2D HEC . . . M 5 187.782 167.134 131.563 1 48.04 ? C2D HEC 501 Q 1 
HETATM 36 C C3D HEC . . . M 5 188.309 166.943 132.986 1 47.88 ? C3D HEC 501 Q 1 
HETATM 37 C C4D HEC . . . M 5 188.438 168.276 133.525 1 48.06 ? C4D HEC 501 Q 1 
HETATM 38 C CMD HEC . . . M 5 187.467 166.026 130.538 1 48.44 ? CMD HEC 501 Q 1 
HETATM 39 C CAD HEC . . . M 5 188.644 165.615 133.697 1 48.1 ? CAD HEC 501 Q 1 
HETATM 40 C CBD HEC . . . M 5 190.16 165.45 133.683 1 48.27 ? CBD HEC 501 Q 1 
HETATM 41 C CGD HEC . . . M 5 190.555 164.097 134.211 1 47.87 ? CGD HEC 501 Q 1 
HETATM 42 O O1D HEC . . . M 5 189.715 163.443 134.88 1 48.04 ? O1D HEC 501 Q 1 
HETATM 43 O O2D HEC . . . M 5 191.715 163.676 133.963 1 48 ? O2D HEC 501 Q 1 
#
_model_server_stats.io_time_ms              15 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    14 
_model_server_stats.query_time_ms           299 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           43 
#