data_3NC5
#
_model_server_result.job_id            QmrjJRqJFGM0GxP4ruUHxw 
_model_server_result.datetime_utc      '2024-11-05 04:41:45' 
_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          3nc5 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":406}' 
#
_entry.id    3NC5 
#
_exptl.entry_id    3NC5 
_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    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            3NC5 
_cell.length_a            63.8 
_cell.length_b            105.4 
_cell.length_c            143.9 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3NC5 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 author_and_software_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,E,F,J 1 1 
B,G,H,I,K 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 G 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 OD1 ASP 199 A ASP 163 1_555 E MG MG . A MG 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.676 ? 
metalc ? metalc2 A OG1 THR 202 A THR 166 1_555 E MG MG . A MG 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.535 ? 
metalc ? metalc3 A O GLN 317 A GLN 281 1_555 F MG MG . A MG 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.627 ? 
metalc ? metalc4 A SG CYS 389 A CYS 353 1_555 C FE HEM . A HEM 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.332 ? 
metalc ? metalc5 C FE HEM . A HEM 406 1_555 J O HOH . A HOH 427 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.251 ? 
metalc ? metalc6 B SG CYS 389 B CYS 353 1_555 G FE HEM . B HEM 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.209 ? 
metalc ? metalc7 B O VAL 390 B VAL 354 1_555 I MG MG . B MG 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.96 ? 
metalc ? metalc8 G FE HEM . B HEM 406 1_555 K O HOH . B HOH 422 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? 
#
_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 142 n n 
CHA C4D HEM doub 143 n n 
CHA HHA HEM sing 144 n n 
CHB C4A HEM sing 145 n n 
CHB C1B HEM doub 146 n n 
CHB HHB HEM sing 147 n n 
CHC C4B HEM sing 148 n n 
CHC C1C HEM doub 149 n n 
CHC HHC HEM sing 150 n n 
CHD C4C HEM doub 151 n n 
CHD C1D HEM sing 152 n n 
CHD HHD HEM sing 153 n n 
C1A C2A HEM doub 154 n y 
C1A NA HEM sing 155 n y 
C2A C3A HEM sing 156 n y 
C2A CAA HEM sing 157 n n 
C3A C4A HEM doub 158 n y 
C3A CMA HEM sing 159 n n 
C4A NA HEM sing 160 n y 
CMA HMA HEM sing 161 n n 
CMA HMAA HEM sing 162 n n 
CMA HMAB HEM sing 163 n n 
CAA CBA HEM sing 164 n n 
CAA HAA HEM sing 165 n n 
CAA HAAA HEM sing 166 n n 
CBA CGA HEM sing 167 n n 
CBA HBA HEM sing 168 n n 
CBA HBAA HEM sing 169 n n 
CGA O1A HEM doub 170 n n 
CGA O2A HEM sing 171 n n 
C1B C2B HEM sing 172 n n 
C1B NB HEM sing 173 n n 
C2B C3B HEM doub 174 n n 
C2B CMB HEM sing 175 n n 
C3B C4B HEM sing 176 n n 
C3B CAB HEM sing 177 n n 
C4B NB HEM doub 178 n n 
CMB HMB HEM sing 179 n n 
CMB HMBA HEM sing 180 n n 
CMB HMBB HEM sing 181 n n 
CAB CBB HEM doub 182 n n 
CAB HAB HEM sing 183 n n 
CBB HBB HEM sing 184 n n 
CBB HBBA HEM sing 185 n n 
C1C C2C HEM sing 186 n y 
C1C NC HEM sing 187 n y 
C2C C3C HEM doub 188 n y 
C2C CMC HEM sing 189 n n 
C3C C4C HEM sing 190 n y 
C3C CAC HEM sing 191 n n 
C4C NC HEM sing 192 n y 
CMC HMC HEM sing 193 n n 
CMC HMCA HEM sing 194 n n 
CMC HMCB HEM sing 195 n n 
CAC CBC HEM doub 196 n n 
CAC HAC HEM sing 197 n n 
CBC HBC HEM sing 198 n n 
CBC HBCA HEM sing 199 n n 
C1D C2D HEM sing 200 n n 
C1D ND HEM doub 201 n n 
C2D C3D HEM doub 202 n n 
C2D CMD HEM sing 203 n n 
C3D C4D HEM sing 204 n n 
C3D CAD HEM sing 205 n n 
C4D ND HEM sing 206 n n 
CMD HMD HEM sing 207 n n 
CMD HMDA HEM sing 208 n n 
CMD HMDB HEM sing 209 n n 
CAD CBD HEM sing 210 n n 
CAD HAD HEM sing 211 n n 
CAD HADA HEM sing 212 n n 
CBD CGD HEM sing 213 n n 
CBD HBD HEM sing 214 n n 
CBD HBDA HEM sing 215 n n 
CGD O1D HEM doub 216 n n 
CGD O2D HEM sing 217 n n 
O2A H2A HEM sing 218 n n 
O2D H2D HEM sing 219 n n 
FE NA HEM sing 220 n n 
FE NB HEM sing 221 n n 
FE NC HEM sing 222 n n 
FE ND HEM sing 223 n n 
#
_atom_sites.entry_id                     3NC5 
_atom_sites.fract_transf_matrix[1][1]    0.015674 
_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]    0.009488 
_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]    0.006949 
_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 HEM A 1 406 1 HEM HEM . 
D 3 GOL A 1 407 2 GOL GOL . 
E 4 MG A 1 408 2 MG MG . 
F 4 MG A 1 409 3 MG MG . 
G 2 HEM B 1 406 1 HEM HEM . 
H 3 GOL B 1 407 1 GOL GOL . 
I 4 MG B 1 408 1 MG MG . 
J 5 HOH A 1 410 2 HOH HOH . 
J 5 HOH A 2 411 9 HOH HOH . 
J 5 HOH A 3 412 12 HOH HOH . 
J 5 HOH A 4 413 15 HOH HOH . 
J 5 HOH A 5 414 16 HOH HOH . 
J 5 HOH A 6 415 21 HOH HOH . 
J 5 HOH A 7 416 22 HOH HOH . 
J 5 HOH A 8 417 24 HOH HOH . 
J 5 HOH A 9 418 36 HOH HOH . 
J 5 HOH A 10 419 39 HOH HOH . 
J 5 HOH A 11 420 45 HOH HOH . 
J 5 HOH A 12 421 46 HOH HOH . 
J 5 HOH A 13 422 49 HOH HOH . 
J 5 HOH A 14 423 74 HOH HOH . 
J 5 HOH A 15 424 77 HOH HOH . 
J 5 HOH A 16 425 82 HOH HOH . 
J 5 HOH A 17 426 90 HOH HOH . 
J 5 HOH A 18 427 94 HOH HOH . 
K 5 HOH B 1 409 3 HOH HOH . 
K 5 HOH B 2 410 6 HOH HOH . 
K 5 HOH B 3 411 8 HOH HOH . 
K 5 HOH B 4 412 14 HOH HOH . 
K 5 HOH B 5 413 20 HOH HOH . 
K 5 HOH B 6 414 31 HOH HOH . 
K 5 HOH B 7 415 33 HOH HOH . 
K 5 HOH B 8 416 42 HOH HOH . 
K 5 HOH B 9 417 43 HOH HOH . 
K 5 HOH B 10 418 48 HOH HOH . 
K 5 HOH B 11 419 52 HOH HOH . 
K 5 HOH B 12 420 65 HOH HOH . 
K 5 HOH B 13 421 89 HOH HOH . 
K 5 HOH B 14 422 93 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 . . . G 2 34.822 2.314 21.85 1 18.89 ? CHA HEM 406 B 1 
HETATM 2 C CHB HEM . . . G 2 34.175 6.818 20.183 1 16.62 ? CHB HEM 406 B 1 
HETATM 3 C CHC HEM . . . G 2 29.568 6.45 21.431 1 17.06 ? CHC HEM 406 B 1 
HETATM 4 C CHD HEM . . . G 2 30.058 1.938 22.942 1 19.87 ? CHD HEM 406 B 1 
HETATM 5 C C1A HEM . . . G 2 35.025 3.551 21.298 1 18.92 ? C1A HEM 406 B 1 
HETATM 6 C C2A HEM . . . G 2 36.293 4.055 20.828 1 20.15 ? C2A HEM 406 B 1 
HETATM 7 C C3A HEM . . . G 2 36.128 5.29 20.364 1 19.64 ? C3A HEM 406 B 1 
HETATM 8 C C4A HEM . . . G 2 34.736 5.623 20.537 1 18.63 ? C4A HEM 406 B 1 
HETATM 9 C CMA HEM . . . G 2 37.203 6.219 19.77 1 19.4 ? CMA HEM 406 B 1 
HETATM 10 C CAA HEM . . . G 2 37.602 3.275 20.855 1 21.9 ? CAA HEM 406 B 1 
HETATM 11 C CBA HEM . . . G 2 37.845 2.824 19.432 1 24.42 ? CBA HEM 406 B 1 
HETATM 12 C CGA HEM . . . G 2 39.071 1.953 19.454 1 26.61 ? CGA HEM 406 B 1 
HETATM 13 O O1A HEM . . . G 2 39.984 2.294 18.642 1 27.43 ? O1A HEM 406 B 1 
HETATM 14 O O2A HEM . . . G 2 39.115 0.963 20.266 1 24.7 ? O2A HEM 406 B 1 
HETATM 15 C C1B HEM . . . G 2 32.86 7.102 20.398 1 16.34 ? C1B HEM 406 B 1 
HETATM 16 C C2B HEM . . . G 2 32.211 8.368 20.078 1 15.84 ? C2B HEM 406 B 1 
HETATM 17 C C3B HEM . . . G 2 30.93 8.234 20.421 1 16.13 ? C3B HEM 406 B 1 
HETATM 18 C C4B HEM . . . G 2 30.763 6.899 20.963 1 16.44 ? C4B HEM 406 B 1 
HETATM 19 C CMB HEM . . . G 2 32.883 9.601 19.432 1 14.5 ? CMB HEM 406 B 1 
HETATM 20 C CAB HEM . . . G 2 29.774 9.252 20.321 1 15.54 ? CAB HEM 406 B 1 
HETATM 21 C CBB HEM . . . G 2 29.616 10.088 19.296 1 16.53 ? CBB HEM 406 B 1 
HETATM 22 C C1C HEM . . . G 2 29.289 5.218 21.932 1 17.3 ? C1C HEM 406 B 1 
HETATM 23 C C2C HEM . . . G 2 27.975 4.793 22.351 1 17.27 ? C2C HEM 406 B 1 
HETATM 24 C C3C HEM . . . G 2 28.087 3.535 22.773 1 17.82 ? C3C HEM 406 B 1 
HETATM 25 C C4C HEM . . . G 2 29.48 3.143 22.632 1 18.19 ? C4C HEM 406 B 1 
HETATM 26 C CMC HEM . . . G 2 26.713 5.677 22.277 1 15.94 ? CMC HEM 406 B 1 
HETATM 27 C CAC HEM . . . G 2 26.937 2.657 23.293 1 18.53 ? CAC HEM 406 B 1 
HETATM 28 C CBC HEM . . . G 2 26.85 1.399 22.854 1 19.56 ? CBC HEM 406 B 1 
HETATM 29 C C1D HEM . . . G 2 31.416 1.628 22.89 1 20.06 ? C1D HEM 406 B 1 
HETATM 30 C C2D HEM . . . G 2 32.058 0.442 23.476 1 19.56 ? C2D HEM 406 B 1 
HETATM 31 C C3D HEM . . . G 2 33.524 0.582 23.124 1 19.84 ? C3D HEM 406 B 1 
HETATM 32 C C4D HEM . . . G 2 33.644 1.821 22.377 1 19.86 ? C4D HEM 406 B 1 
HETATM 33 C CMD HEM . . . G 2 31.457 -0.739 24.276 1 17.88 ? CMD HEM 406 B 1 
HETATM 34 C CAD HEM . . . G 2 34.618 -0.412 23.513 1 22.1 ? CAD HEM 406 B 1 
HETATM 35 C CBD HEM . . . G 2 35.171 -0.033 24.892 1 25.77 ? CBD HEM 406 B 1 
HETATM 36 C CGD HEM . . . G 2 36.04 -1.189 25.334 1 28.9 ? CGD HEM 406 B 1 
HETATM 37 O O1D HEM . . . G 2 36.32 -2.078 24.468 1 30.53 ? O1D HEM 406 B 1 
HETATM 38 O O2D HEM . . . G 2 36.459 -1.238 26.527 1 29.67 ? O2D HEM 406 B 1 
HETATM 39 N NA HEM . . . G 2 34.089 4.538 21.112 1 17.9 ? NA HEM 406 B 1 
HETATM 40 N NB HEM . . . G 2 31.947 6.217 20.939 1 15.36 ? NB HEM 406 B 1 
HETATM 41 N NC HEM . . . G 2 30.182 4.202 22.123 1 17.4 ? NC HEM 406 B 1 
HETATM 42 N ND HEM . . . G 2 32.386 2.397 22.259 1 17.78 ? ND HEM 406 B 1 
HETATM 43 FE FE HEM . . . G 2 32.103 4.142 21.467 1 20.28 ? FE HEM 406 B 1 
#
_model_server_stats.io_time_ms              18 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    28 
_model_server_stats.query_time_ms           323 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           43 
#