data_3P99
#
_model_server_result.job_id            92GqLFY9Ece_ali_2tlEng 
_model_server_result.datetime_utc      '2024-11-15 08:53:07' 
_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          3p99 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":482}' 
#
_entry.id    3P99 
#
_exptl.entry_id    3P99 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              616.487 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PROTOPORPHYRIN IX CONTAINING FE' 
_entity.pdbx_number_of_molecules    4 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         107.93 
_cell.angle_beta          102.43 
_cell.angle_gamma         99.57 
_cell.entry_id            3P99 
_cell.length_a            59.61 
_cell.length_b            80.57 
_cell.length_c            115.8 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3P99 
_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 
? monomeric 1 author_defined_assembly 3 
? monomeric 1 author_defined_assembly 4 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,E,F,M 1 1 
B,G,H,N 2 1 
C,I,J,O 3 1 
D,K,L,P 4 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 E N N 
? 2 G N N 
? 2 I N N 
? 2 K 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 SG CYS 394 A CYS 422 1_555 E FE HEM . A HEM 482 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? 
metalc ? metalc2 B SG CYS 394 B CYS 422 1_555 G FE HEM . B HEM 482 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.407 ? 
metalc ? metalc3 C SG CYS 394 C CYS 422 1_555 I FE HEM . C HEM 482 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.208 ? 
metalc ? metalc4 D SG CYS 394 D CYS 422 1_555 K FE HEM . D HEM 482 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? 
#
_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                     3P99 
_atom_sites.fract_transf_matrix[1][1]    0.016776 
_atom_sites.fract_transf_matrix[1][2]    0.002828 
_atom_sites.fract_transf_matrix[1][3]    0.005039 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.012587 
_atom_sites.fract_transf_matrix[2][3]    0.004808 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.009466 
_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
E 2 HEM A 1 482 480 HEM HEM . 
F 3 LNP A 1 490 490 LNP LNP . 
G 2 HEM B 1 482 480 HEM HEM . 
H 3 LNP B 1 490 490 LNP LNP . 
I 2 HEM C 1 482 480 HEM HEM . 
J 3 LNP C 1 490 490 LNP LNP . 
K 2 HEM D 1 482 480 HEM HEM . 
L 3 LNP D 1 490 490 LNP LNP . 
M 4 HOH A 1 3 3 HOH HOH . 
M 4 HOH A 2 8 8 HOH HOH . 
M 4 HOH A 3 12 12 HOH HOH . 
M 4 HOH A 4 18 18 HOH HOH . 
M 4 HOH A 5 21 21 HOH HOH . 
M 4 HOH A 6 28 28 HOH HOH . 
M 4 HOH A 7 483 29 HOH HOH . 
M 4 HOH A 8 484 30 HOH HOH . 
M 4 HOH A 9 485 34 HOH HOH . 
M 4 HOH A 10 486 35 HOH HOH . 
M 4 HOH A 11 487 37 HOH HOH . 
M 4 HOH A 12 488 39 HOH HOH . 
M 4 HOH A 13 489 40 HOH HOH . 
M 4 HOH A 14 491 50 HOH HOH . 
N 4 HOH B 1 2 2 HOH HOH . 
N 4 HOH B 2 5 5 HOH HOH . 
N 4 HOH B 3 6 6 HOH HOH . 
N 4 HOH B 4 7 7 HOH HOH . 
N 4 HOH B 5 9 9 HOH HOH . 
N 4 HOH B 6 10 10 HOH HOH . 
N 4 HOH B 7 11 11 HOH HOH . 
N 4 HOH B 8 22 22 HOH HOH . 
N 4 HOH B 9 483 31 HOH HOH . 
N 4 HOH B 10 484 36 HOH HOH . 
N 4 HOH B 11 485 38 HOH HOH . 
N 4 HOH B 12 486 42 HOH HOH . 
N 4 HOH B 13 487 43 HOH HOH . 
O 4 HOH C 1 13 13 HOH HOH . 
O 4 HOH C 2 14 14 HOH HOH . 
O 4 HOH C 3 17 17 HOH HOH . 
O 4 HOH C 4 19 19 HOH HOH . 
O 4 HOH C 5 20 20 HOH HOH . 
O 4 HOH C 6 23 23 HOH HOH . 
O 4 HOH C 7 27 27 HOH HOH . 
O 4 HOH C 8 483 32 HOH HOH . 
O 4 HOH C 9 484 33 HOH HOH . 
O 4 HOH C 10 485 41 HOH HOH . 
O 4 HOH C 11 486 46 HOH HOH . 
O 4 HOH C 12 487 48 HOH HOH . 
P 4 HOH D 1 1 1 HOH HOH . 
P 4 HOH D 2 4 4 HOH HOH . 
P 4 HOH D 3 15 15 HOH HOH . 
P 4 HOH D 4 16 16 HOH HOH . 
P 4 HOH D 5 24 24 HOH HOH . 
P 4 HOH D 6 25 25 HOH HOH . 
P 4 HOH D 7 26 26 HOH HOH . 
P 4 HOH D 8 483 44 HOH HOH . 
P 4 HOH D 9 484 45 HOH HOH . 
P 4 HOH D 10 485 47 HOH HOH . 
P 4 HOH D 11 486 49 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 HEM . . . K 2 31.438 -17.74 -37.464 1 44.9 ? CHA HEM 482 D 1 
HETATM 2 C CHB HEM . . . K 2 31.167 -17.242 -32.642 1 37.23 ? CHB HEM 482 D 1 
HETATM 3 C CHC HEM . . . K 2 35.726 -15.572 -32.569 1 38.85 ? CHC HEM 482 D 1 
HETATM 4 C CHD HEM . . . K 2 35.766 -15.457 -37.423 1 43.29 ? CHD HEM 482 D 1 
HETATM 5 C C1A HEM . . . K 2 30.978 -17.77 -36.166 1 39.68 ? C1A HEM 482 D 1 
HETATM 6 C C2A HEM . . . K 2 29.686 -18.261 -35.739 1 38.64 ? C2A HEM 482 D 1 
HETATM 7 C C3A HEM . . . K 2 29.608 -18.127 -34.412 1 38.71 ? C3A HEM 482 D 1 
HETATM 8 C C4A HEM . . . K 2 30.848 -17.54 -33.948 1 38.03 ? C4A HEM 482 D 1 
HETATM 9 C CMA HEM . . . K 2 28.411 -18.522 -33.519 1 33.14 ? CMA HEM 482 D 1 
HETATM 10 C CAA HEM . . . K 2 28.606 -18.849 -36.671 1 41.67 ? CAA HEM 482 D 1 
HETATM 11 C CBA HEM . . . K 2 27.501 -17.84 -36.95 1 43.91 ? CBA HEM 482 D 1 
HETATM 12 C CGA HEM . . . K 2 26.521 -18.458 -37.911 1 45.96 ? CGA HEM 482 D 1 
HETATM 13 O O1A HEM . . . K 2 26.274 -19.688 -37.806 1 46.56 ? O1A HEM 482 D 1 
HETATM 14 O O2A HEM . . . K 2 25.99 -17.719 -38.781 1 48.54 ? O2A HEM 482 D 1 
HETATM 15 C C1B HEM . . . K 2 32.383 -16.773 -32.196 1 36.94 ? C1B HEM 482 D 1 
HETATM 16 C C2B HEM . . . K 2 32.752 -16.549 -30.816 1 33.73 ? C2B HEM 482 D 1 
HETATM 17 C C3B HEM . . . K 2 34.007 -16.088 -30.789 1 36.06 ? C3B HEM 482 D 1 
HETATM 18 C C4B HEM . . . K 2 34.483 -16.002 -32.157 1 35.94 ? C4B HEM 482 D 1 
HETATM 19 C CMB HEM . . . K 2 31.838 -16.805 -29.599 1 32.75 ? CMB HEM 482 D 1 
HETATM 20 C CAB HEM . . . K 2 34.809 -15.711 -29.521 1 36.13 ? CAB HEM 482 D 1 
HETATM 21 C CBB HEM . . . K 2 35.904 -16.397 -29.178 1 35.55 ? CBB HEM 482 D 1 
HETATM 22 C C1C HEM . . . K 2 36.111 -15.329 -33.872 1 41.01 ? C1C HEM 482 D 1 
HETATM 23 C C2C HEM . . . K 2 37.317 -14.644 -34.306 1 43.32 ? C2C HEM 482 D 1 
HETATM 24 C C3C HEM . . . K 2 37.321 -14.617 -35.639 1 41.88 ? C3C HEM 482 D 1 
HETATM 25 C C4C HEM . . . K 2 36.124 -15.28 -36.106 1 39.57 ? C4C HEM 482 D 1 
HETATM 26 C CMC HEM . . . K 2 38.413 -14.047 -33.395 1 41.4 ? CMC HEM 482 D 1 
HETATM 27 C CAC HEM . . . K 2 38.411 -13.987 -36.531 1 43.49 ? CAC HEM 482 D 1 
HETATM 28 C CBC HEM . . . K 2 39.474 -14.71 -36.89 1 47.37 ? CBC HEM 482 D 1 
HETATM 29 C C1D HEM . . . K 2 34.613 -16.045 -37.896 1 41.85 ? C1D HEM 482 D 1 
HETATM 30 C C2D HEM . . . K 2 34.26 -16.168 -39.292 1 45.79 ? C2D HEM 482 D 1 
HETATM 31 C C3D HEM . . . K 2 32.906 -16.885 -39.31 1 42.33 ? C3D HEM 482 D 1 
HETATM 32 C C4D HEM . . . K 2 32.579 -17.116 -37.921 1 41.23 ? C4D HEM 482 D 1 
HETATM 33 C CMD HEM . . . K 2 35.078 -15.68 -40.508 1 51.75 ? CMD HEM 482 D 1 
HETATM 34 C CAD HEM . . . K 2 32.07 -17.265 -40.554 1 41.91 ? CAD HEM 482 D 1 
HETATM 35 C CBD HEM . . . K 2 31.898 -18.778 -40.646 1 42.42 ? CBD HEM 482 D 1 
HETATM 36 C CGD HEM . . . K 2 31.463 -19.143 -42.043 1 50.66 ? CGD HEM 482 D 1 
HETATM 37 O O1D HEM . . . K 2 31.967 -20.157 -42.59 1 57.37 ? O1D HEM 482 D 1 
HETATM 38 O O2D HEM . . . K 2 30.61 -18.417 -42.615 1 52.62 ? O2D HEM 482 D 1 
HETATM 39 N NA HEM . . . K 2 31.662 -17.339 -35.046 1 38.26 ? NA HEM 482 D 1 
HETATM 40 N NB HEM . . . K 2 33.465 -16.432 -32.985 1 39.82 ? NB HEM 482 D 1 
HETATM 41 N NC HEM . . . K 2 35.411 -15.705 -35.001 1 39.64 ? NC HEM 482 D 1 
HETATM 42 N ND HEM . . . K 2 33.606 -16.616 -37.127 1 39.9 ? ND HEM 482 D 1 
HETATM 43 FE FE HEM . . . K 2 33.518 -16.5 -35.025 1 44.04 ? FE HEM 482 D 1 
#
_model_server_stats.io_time_ms              38 
_model_server_stats.parse_time_ms           17 
_model_server_stats.create_model_time_ms    23 
_model_server_stats.query_time_ms           455 
_model_server_stats.encode_time_ms          11 
_model_server_stats.element_count           43 
#