data_5VMM
#
_model_server_result.job_id            y0O_ZAJpCmAGgh2Ig3XB-g 
_model_server_result.datetime_utc      '2024-11-04 22:57:49' 
_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          5vmm 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"I","auth_seq_id":201}' 
#
_entry.id    5VMM 
#
_exptl.entry_id    5VMM 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              616.487 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PROTOPORPHYRIN IX CONTAINING FE' 
_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            5VMM 
_cell.length_a            140.815 
_cell.length_b            209.114 
_cell.length_c            70.431 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5VMM 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 2' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    octameric 
_pdbx_struct_assembly.oligomeric_count      8 
_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 
_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
? 5 I N N 
? 5 J 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
metalc ? metalc1 A NE2 HIS 58 A HIS 58 1_555 I FE HEM . A HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.569 ? 
metalc ? metalc2 A NE2 HIS 89 A HIS 89 1_555 I FE HEM . A HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.695 ? 
metalc ? metalc3 C NE2 HIS 58 C HIS 58 1_555 J FE HEM . C HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.779 ? 
metalc ? metalc4 C NE2 HIS 89 C HIS 89 1_555 J FE HEM . C HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.697 ? 
#
_chem_comp.formula           'C34 H32 Fe N4 O4' 
_chem_comp.formula_weight    616.487 
_chem_comp.id                HEM 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'PROTOPORPHYRIN IX CONTAINING FE' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     HEME 
#
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 HEM sing 129 n n 
CHA C4D HEM doub 130 n n 
CHA HHA HEM sing 131 n n 
CHB C4A HEM sing 132 n n 
CHB C1B HEM doub 133 n n 
CHB HHB HEM sing 134 n n 
CHC C4B HEM sing 135 n n 
CHC C1C HEM doub 136 n n 
CHC HHC HEM sing 137 n n 
CHD C4C HEM doub 138 n n 
CHD C1D HEM sing 139 n n 
CHD HHD HEM sing 140 n n 
C1A C2A HEM doub 141 n y 
C1A NA HEM sing 142 n y 
C2A C3A HEM sing 143 n y 
C2A CAA HEM sing 144 n n 
C3A C4A HEM doub 145 n y 
C3A CMA HEM sing 146 n n 
C4A NA HEM sing 147 n y 
CMA HMA HEM sing 148 n n 
CMA HMAA HEM sing 149 n n 
CMA HMAB HEM sing 150 n n 
CAA CBA HEM sing 151 n n 
CAA HAA HEM sing 152 n n 
CAA HAAA HEM sing 153 n n 
CBA CGA HEM sing 154 n n 
CBA HBA HEM sing 155 n n 
CBA HBAA HEM sing 156 n n 
CGA O1A HEM doub 157 n n 
CGA O2A HEM sing 158 n n 
C1B C2B HEM sing 159 n n 
C1B NB HEM sing 160 n n 
C2B C3B HEM doub 161 n n 
C2B CMB HEM sing 162 n n 
C3B C4B HEM sing 163 n n 
C3B CAB HEM sing 164 n n 
C4B NB HEM doub 165 n n 
CMB HMB HEM sing 166 n n 
CMB HMBA HEM sing 167 n n 
CMB HMBB HEM sing 168 n n 
CAB CBB HEM doub 169 n n 
CAB HAB HEM sing 170 n n 
CBB HBB HEM sing 171 n n 
CBB HBBA HEM sing 172 n n 
C1C C2C HEM sing 173 n y 
C1C NC HEM sing 174 n y 
C2C C3C HEM doub 175 n y 
C2C CMC HEM sing 176 n n 
C3C C4C HEM sing 177 n y 
C3C CAC HEM sing 178 n n 
C4C NC HEM sing 179 n y 
CMC HMC HEM sing 180 n n 
CMC HMCA HEM sing 181 n n 
CMC HMCB HEM sing 182 n n 
CAC CBC HEM doub 183 n n 
CAC HAC HEM sing 184 n n 
CBC HBC HEM sing 185 n n 
CBC HBCA HEM sing 186 n n 
C1D C2D HEM sing 187 n n 
C1D ND HEM doub 188 n n 
C2D C3D HEM doub 189 n n 
C2D CMD HEM sing 190 n n 
C3D C4D HEM sing 191 n n 
C3D CAD HEM sing 192 n n 
C4D ND HEM sing 193 n n 
CMD HMD HEM sing 194 n n 
CMD HMDA HEM sing 195 n n 
CMD HMDB HEM sing 196 n n 
CAD CBD HEM sing 197 n n 
CAD HAD HEM sing 198 n n 
CAD HADA HEM sing 199 n n 
CBD CGD HEM sing 200 n n 
CBD HBD HEM sing 201 n n 
CBD HBDA HEM sing 202 n n 
CGD O1D HEM doub 203 n n 
CGD O2D HEM sing 204 n n 
O2A H2A HEM sing 205 n n 
O2D H2D HEM sing 206 n n 
FE NA HEM sing 207 n n 
FE NB HEM sing 208 n n 
FE NC HEM sing 209 n n 
FE ND HEM sing 210 n n 
#
_atom_sites.entry_id                     5VMM 
_atom_sites.fract_transf_matrix[1][1]    0.007102 
_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]    0.004782 
_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]    0.014198 
_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
I 5 HEM A 1 201 2 HEM HEM . 
J 5 HEM C 1 201 1 HEM HEM . 
#
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 HEM . . . I 5 45.728 38.352 10.449 1 114.66 ? CHA HEM 201 A 1 
HETATM 2 C CHB HEM . . . I 5 49.623 36.848 7.988 1 102.23 ? CHB HEM 201 A 1 
HETATM 3 C CHC HEM . . . I 5 49.506 32.704 10.494 1 100.3 ? CHC HEM 201 A 1 
HETATM 4 C CHD HEM . . . I 5 46.677 34.893 13.774 1 102.44 ? CHD HEM 201 A 1 
HETATM 5 C C1A HEM . . . I 5 46.772 38.318 9.549 1 111.38 ? C1A HEM 201 A 1 
HETATM 6 C C2A HEM . . . I 5 47.115 39.347 8.587 1 109.26 ? C2A HEM 201 A 1 
HETATM 7 C C3A HEM . . . I 5 48.189 38.933 7.901 1 107.35 ? C3A HEM 201 A 1 
HETATM 8 C C4A HEM . . . I 5 48.57 37.63 8.411 1 104.06 ? C4A HEM 201 A 1 
HETATM 9 C CMA HEM . . . I 5 48.909 39.697 6.768 1 109.17 ? CMA HEM 201 A 1 
HETATM 10 C CAA HEM . . . I 5 46.347 40.676 8.394 1 110.34 ? CAA HEM 201 A 1 
HETATM 11 C CBA HEM . . . I 5 47.137 41.873 8.92 1 119.68 ? CBA HEM 201 A 1 
HETATM 12 C CGA HEM . . . I 5 47.028 41.983 10.42 1 128.56 ? CGA HEM 201 A 1 
HETATM 13 O O1A HEM . . . I 5 47.15 40.947 11.123 1 122.36 ? O1A HEM 201 A 1 
HETATM 14 O O2A HEM . . . I 5 46.833 43.12 10.921 1 142.87 ? O2A HEM 201 A 1 
HETATM 15 C C1B HEM . . . I 5 49.806 35.527 8.338 1 101.97 ? C1B HEM 201 A 1 
HETATM 16 C C2B HEM . . . I 5 50.461 34.507 7.541 1 96.34 ? C2B HEM 201 A 1 
HETATM 17 C C3B HEM . . . I 5 50.429 33.353 8.236 1 99.6 ? C3B HEM 201 A 1 
HETATM 18 C C4B HEM . . . I 5 49.75 33.619 9.491 1 99.77 ? C4B HEM 201 A 1 
HETATM 19 C CMB HEM . . . I 5 51.065 34.782 6.144 1 96.1 ? CMB HEM 201 A 1 
HETATM 20 C CAB HEM . . . I 5 50.98 31.948 7.868 1 105.31 ? CAB HEM 201 A 1 
HETATM 21 C CBB HEM . . . I 5 51.627 31.645 6.737 1 98.81 ? CBB HEM 201 A 1 
HETATM 22 C C1C HEM . . . I 5 48.746 32.929 11.624 1 109.56 ? C1C HEM 201 A 1 
HETATM 23 C C2C HEM . . . I 5 48.497 31.987 12.696 1 115.51 ? C2C HEM 201 A 1 
HETATM 24 C C3C HEM . . . I 5 47.719 32.574 13.609 1 106.89 ? C3C HEM 201 A 1 
HETATM 25 C C4C HEM . . . I 5 47.439 33.927 13.149 1 107.86 ? C4C HEM 201 A 1 
HETATM 26 C CMC HEM . . . I 5 49.037 30.543 12.777 1 119.79 ? CMC HEM 201 A 1 
HETATM 27 C CAC HEM . . . I 5 47.238 31.874 14.906 1 106.82 ? CAC HEM 201 A 1 
HETATM 28 C CBC HEM . . . I 5 46.487 32.482 15.83 1 110.32 ? CBC HEM 201 A 1 
HETATM 29 C C1D HEM . . . I 5 46.075 35.977 13.17 1 107.98 ? C1D HEM 201 A 1 
HETATM 30 C C2D HEM . . . I 5 44.972 36.74 13.715 1 110.66 ? C2D HEM 201 A 1 
HETATM 31 C C3D HEM . . . I 5 44.671 37.832 12.669 1 113.55 ? C3D HEM 201 A 1 
HETATM 32 C C4D HEM . . . I 5 45.627 37.606 11.605 1 110.88 ? C4D HEM 201 A 1 
HETATM 33 C CMD HEM . . . I 5 44.272 36.484 15.069 1 104.54 ? CMD HEM 201 A 1 
HETATM 34 C CAD HEM . . . I 5 43.598 38.95 12.698 1 112.44 ? CAD HEM 201 A 1 
HETATM 35 C CBD HEM . . . I 5 42.207 38.444 13.079 1 100.09 ? CBD HEM 201 A 1 
HETATM 36 C CGD HEM . . . I 5 41.955 37.077 12.5 1 106.02 ? CGD HEM 201 A 1 
HETATM 37 O O1D HEM . . . I 5 41.507 36.181 13.26 1 107.42 ? O1D HEM 201 A 1 
HETATM 38 O O2D HEM . . . I 5 42.207 36.878 11.283 1 109.04 ? O2D HEM 201 A 1 
HETATM 39 N NA HEM . . . I 5 47.684 37.29 9.415 1 106.79 ? NA HEM 201 A 1 
HETATM 40 N NB HEM . . . I 5 49.387 34.95 9.519 1 106.43 ? NB HEM 201 A 1 
HETATM 41 N NC HEM . . . I 5 48.085 34.101 11.938 1 111.56 ? NC HEM 201 A 1 
HETATM 42 N ND HEM . . . I 5 46.425 36.516 11.937 1 106.43 ? ND HEM 201 A 1 
HETATM 43 FE FE HEM . . . I 5 47.992 35.801 10.792 1 112.36 ? FE HEM 201 A 1 
#
_model_server_stats.io_time_ms              251 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    21 
_model_server_stats.query_time_ms           298 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           43 
#