data_6UDM
#
_model_server_result.job_id            dWXVjvfd-NctAAhM0xH2kQ 
_model_server_result.datetime_utc      '2024-10-17 01:48:04' 
_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          6udm 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":601}' 
#
_entry.id    6UDM 
#
_exptl.entry_id    6UDM 
_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         90 
_cell.angle_beta          90 
_cell.angle_gamma         120 
_cell.entry_id            6UDM 
_cell.length_a            241.281 
_cell.length_b            241.281 
_cell.length_c            125.298 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6UDM 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        152 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 31 2 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,G 1 1 
B,H,I 2 1 
C,J,K 3 1 
D,L,M 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 H N N 
? 2 J N N 
? 2 L N N 
#
_struct_conn.conn_type_id                   metalc 
_struct_conn.details                        ? 
_struct_conn.id                             metalc1 
_struct_conn.ptnr1_label_asym_id            A 
_struct_conn.ptnr1_label_atom_id            SG 
_struct_conn.ptnr1_label_comp_id            CYS 
_struct_conn.ptnr1_label_seq_id             430 
_struct_conn.ptnr1_auth_asym_id             A 
_struct_conn.ptnr1_auth_comp_id             CYS 
_struct_conn.ptnr1_auth_seq_id              457 
_struct_conn.ptnr1_symmetry                 1_555 
_struct_conn.ptnr2_label_asym_id            E 
_struct_conn.ptnr2_label_atom_id            FE 
_struct_conn.ptnr2_label_comp_id            HEM 
_struct_conn.ptnr2_label_seq_id             . 
_struct_conn.ptnr2_auth_asym_id             A 
_struct_conn.ptnr2_auth_comp_id             HEM 
_struct_conn.ptnr2_auth_seq_id              601 
_struct_conn.ptnr2_symmetry                 1_555 
_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                2.67 
_struct_conn.pdbx_value_order               ? 
#
_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 232 n n 
CHA C4D HEM doub 233 n n 
CHA HHA HEM sing 234 n n 
CHB C4A HEM sing 235 n n 
CHB C1B HEM doub 236 n n 
CHB HHB HEM sing 237 n n 
CHC C4B HEM sing 238 n n 
CHC C1C HEM doub 239 n n 
CHC HHC HEM sing 240 n n 
CHD C4C HEM doub 241 n n 
CHD C1D HEM sing 242 n n 
CHD HHD HEM sing 243 n n 
C1A C2A HEM doub 244 n y 
C1A NA HEM sing 245 n y 
C2A C3A HEM sing 246 n y 
C2A CAA HEM sing 247 n n 
C3A C4A HEM doub 248 n y 
C3A CMA HEM sing 249 n n 
C4A NA HEM sing 250 n y 
CMA HMA HEM sing 251 n n 
CMA HMAA HEM sing 252 n n 
CMA HMAB HEM sing 253 n n 
CAA CBA HEM sing 254 n n 
CAA HAA HEM sing 255 n n 
CAA HAAA HEM sing 256 n n 
CBA CGA HEM sing 257 n n 
CBA HBA HEM sing 258 n n 
CBA HBAA HEM sing 259 n n 
CGA O1A HEM doub 260 n n 
CGA O2A HEM sing 261 n n 
C1B C2B HEM sing 262 n n 
C1B NB HEM sing 263 n n 
C2B C3B HEM doub 264 n n 
C2B CMB HEM sing 265 n n 
C3B C4B HEM sing 266 n n 
C3B CAB HEM sing 267 n n 
C4B NB HEM doub 268 n n 
CMB HMB HEM sing 269 n n 
CMB HMBA HEM sing 270 n n 
CMB HMBB HEM sing 271 n n 
CAB CBB HEM doub 272 n n 
CAB HAB HEM sing 273 n n 
CBB HBB HEM sing 274 n n 
CBB HBBA HEM sing 275 n n 
C1C C2C HEM sing 276 n y 
C1C NC HEM sing 277 n y 
C2C C3C HEM doub 278 n y 
C2C CMC HEM sing 279 n n 
C3C C4C HEM sing 280 n y 
C3C CAC HEM sing 281 n n 
C4C NC HEM sing 282 n y 
CMC HMC HEM sing 283 n n 
CMC HMCA HEM sing 284 n n 
CMC HMCB HEM sing 285 n n 
CAC CBC HEM doub 286 n n 
CAC HAC HEM sing 287 n n 
CBC HBC HEM sing 288 n n 
CBC HBCA HEM sing 289 n n 
C1D C2D HEM sing 290 n n 
C1D ND HEM doub 291 n n 
C2D C3D HEM doub 292 n n 
C2D CMD HEM sing 293 n n 
C3D C4D HEM sing 294 n n 
C3D CAD HEM sing 295 n n 
C4D ND HEM sing 296 n n 
CMD HMD HEM sing 297 n n 
CMD HMDA HEM sing 298 n n 
CMD HMDB HEM sing 299 n n 
CAD CBD HEM sing 300 n n 
CAD HAD HEM sing 301 n n 
CAD HADA HEM sing 302 n n 
CBD CGD HEM sing 303 n n 
CBD HBD HEM sing 304 n n 
CBD HBDA HEM sing 305 n n 
CGD O1D HEM doub 306 n n 
CGD O2D HEM sing 307 n n 
O2A H2A HEM sing 308 n n 
O2D H2D HEM sing 309 n n 
FE NA HEM sing 310 n n 
FE NB HEM sing 311 n n 
FE NC HEM sing 312 n n 
FE ND HEM sing 313 n n 
#
_atom_sites.entry_id                     6UDM 
_atom_sites.fract_transf_matrix[1][1]    0.004145 
_atom_sites.fract_transf_matrix[1][2]    0.002393 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.004786 
_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]    0.007981 
_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 1 601 601 HEM HEM . 
F 3 Q4P A 1 602 1 Q4P LIG . 
G 4 CPS A 1 603 1 CPS CPS . 
H 2 HEM B 1 601 601 HEM HEM . 
I 3 Q4P B 1 602 2 Q4P LIG . 
J 2 HEM C 1 601 601 HEM HEM . 
K 3 Q4P C 1 602 3 Q4P LIG . 
L 2 HEM D 1 601 601 HEM HEM . 
M 3 Q4P D 1 602 4 Q4P LIG . 
#
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 . . . H 2 -21.574 -89.012 53.448 1 69.49 ? CHA HEM 601 B 1 
HETATM 2 C CHB HEM . . . H 2 -20.779 -93.065 50.903 1 67.5 ? CHB HEM 601 B 1 
HETATM 3 C CHC HEM . . . H 2 -20.802 -95.608 55.043 1 69.95 ? CHC HEM 601 B 1 
HETATM 4 C CHD HEM . . . H 2 -21.795 -91.58 57.548 1 71.83 ? CHD HEM 601 B 1 
HETATM 5 C C1A HEM . . . H 2 -21.355 -89.882 52.407 1 69.04 ? C1A HEM 601 B 1 
HETATM 6 C C2A HEM . . . H 2 -21.256 -89.512 51.014 1 66.15 ? C2A HEM 601 B 1 
HETATM 7 C C3A HEM . . . H 2 -21.041 -90.624 50.306 1 66.14 ? C3A HEM 601 B 1 
HETATM 8 C C4A HEM . . . H 2 -20.986 -91.742 51.227 1 68.52 ? C4A HEM 601 B 1 
HETATM 9 C CMA HEM . . . H 2 -20.872 -90.712 48.776 1 64.24 ? CMA HEM 601 B 1 
HETATM 10 C CAA HEM . . . H 2 -21.403 -88.07 50.486 1 64.32 ? CAA HEM 601 B 1 
HETATM 11 C CBA HEM . . . H 2 -20.085 -87.579 49.905 1 66.38 ? CBA HEM 601 B 1 
HETATM 12 C CGA HEM . . . H 2 -20.232 -86.129 49.523 1 65.36 ? CGA HEM 601 B 1 
HETATM 13 O O1A HEM . . . H 2 -19.259 -85.561 48.954 1 65.4 ? O1A HEM 601 B 1 
HETATM 14 O O2A HEM . . . H 2 -21.32 -85.551 49.79 1 62.35 ? O2A HEM 601 B 1 
HETATM 15 C C1B HEM . . . H 2 -20.729 -94.111 51.801 1 68.03 ? C1B HEM 601 B 1 
HETATM 16 C C2B HEM . . . H 2 -20.542 -95.512 51.474 1 65.88 ? C2B HEM 601 B 1 
HETATM 17 C C3B HEM . . . H 2 -20.557 -96.211 52.616 1 65.9 ? C3B HEM 601 B 1 
HETATM 18 C C4B HEM . . . H 2 -20.741 -95.275 53.706 1 68.94 ? C4B HEM 601 B 1 
HETATM 19 C CMB HEM . . . H 2 -20.372 -96.062 50.041 1 64.1 ? CMB HEM 601 B 1 
HETATM 20 C CAB HEM . . . H 2 -20.388 -97.735 52.819 1 64.58 ? CAB HEM 601 B 1 
HETATM 21 C CBB HEM . . . H 2 -19.922 -98.538 51.857 1 63.57 ? CBB HEM 601 B 1 
HETATM 22 C C1C HEM . . . H 2 -21.038 -94.739 56.086 1 70.51 ? C1C HEM 601 B 1 
HETATM 23 C C2C HEM . . . H 2 -21.031 -95.074 57.496 1 69.48 ? C2C HEM 601 B 1 
HETATM 24 C C3C HEM . . . H 2 -21.302 -93.959 58.188 1 70.13 ? C3C HEM 601 B 1 
HETATM 25 C C4C HEM . . . H 2 -21.495 -92.887 57.234 1 71.79 ? C4C HEM 601 B 1 
HETATM 26 C CMC HEM . . . H 2 -20.748 -96.484 58.058 1 69.25 ? CMC HEM 601 B 1 
HETATM 27 C CAC HEM . . . H 2 -21.419 -93.765 59.719 1 70.64 ? CAC HEM 601 B 1 
HETATM 28 C CBC HEM . . . H 2 -21.501 -94.793 60.571 1 70.8 ? CBC HEM 601 B 1 
HETATM 29 C C1D HEM . . . H 2 -21.848 -90.539 56.653 1 71.2 ? C1D HEM 601 B 1 
HETATM 30 C C2D HEM . . . H 2 -22.191 -89.167 56.964 1 70.08 ? C2D HEM 601 B 1 
HETATM 31 C C3D HEM . . . H 2 -22.13 -88.465 55.83 1 69.17 ? C3D HEM 601 B 1 
HETATM 32 C C4D HEM . . . H 2 -21.745 -89.363 54.765 1 69.82 ? C4D HEM 601 B 1 
HETATM 33 C CMD HEM . . . H 2 -22.563 -88.633 58.365 1 70.17 ? CMD HEM 601 B 1 
HETATM 34 C CAD HEM . . . H 2 -22.405 -86.96 55.647 1 67.89 ? CAD HEM 601 B 1 
HETATM 35 C CBD HEM . . . H 2 -21.067 -86.254 55.465 1 67.25 ? CBD HEM 601 B 1 
HETATM 36 C CGD HEM . . . H 2 -21.293 -84.793 55.192 1 66.68 ? CGD HEM 601 B 1 
HETATM 37 O O1D HEM . . . H 2 -20.307 -84.016 55.236 1 66.85 ? O1D HEM 601 B 1 
HETATM 38 O O2D HEM . . . H 2 -22.459 -84.403 54.935 1 67.19 ? O2D HEM 601 B 1 
HETATM 39 N NA HEM . . . H 2 -21.18 -91.25 52.504 1 70.12 ? NA HEM 601 B 1 
HETATM 40 N NB HEM . . . H 2 -20.845 -94.003 53.174 1 68.72 ? NB HEM 601 B 1 
HETATM 41 N NC HEM . . . H 2 -21.322 -93.394 55.96 1 71.36 ? NC HEM 601 B 1 
HETATM 42 N ND HEM . . . H 2 -21.579 -90.624 55.3 1 70.63 ? ND HEM 601 B 1 
HETATM 43 FE FE HEM . . . H 2 -21.156 -92.305 54.239 1 101.38 ? FE HEM 601 B 1 
HETATM 44 H HHB HEM . . . H 2 -20.527 -93.262 49.977 1 67.5 ? HHB HEM 601 B 1 
HETATM 45 H HHC HEM . . . H 2 -20.669 -96.551 55.272 1 69.95 ? HHC HEM 601 B 1 
HETATM 46 H HHD HEM . . . H 2 -22.122 -91.404 58.455 1 71.83 ? HHD HEM 601 B 1 
HETATM 47 H HMA HEM . . . H 2 -21.644 -90.296 48.338 1 64.24 ? HMA HEM 601 B 1 
HETATM 48 H HMAA HEM . . . H 2 -20.812 -91.652 48.507 1 64.24 ? HMAA HEM 601 B 1 
HETATM 49 H HMAB HEM . . . H 2 -20.054 -90.243 48.509 1 64.24 ? HMAB HEM 601 B 1 
HETATM 50 H HAA HEM . . . H 2 -21.67 -87.487 51.213 1 64.32 ? HAA HEM 601 B 1 
HETATM 51 H HAAA HEM . . . H 2 -22.083 -88.051 49.795 1 64.32 ? HAAA HEM 601 B 1 
HETATM 52 H HBA HEM . . . H 2 -19.861 -88.099 49.118 1 66.38 ? HBA HEM 601 B 1 
HETATM 53 H HBAA HEM . . . H 2 -19.383 -87.671 50.568 1 66.38 ? HBAA HEM 601 B 1 
HETATM 54 H HMB HEM . . . H 2 -20.765 -95.438 49.411 1 64.1 ? HMB HEM 601 B 1 
HETATM 55 H HMBA HEM . . . H 2 -20.818 -96.919 49.961 1 64.1 ? HMBA HEM 601 B 1 
HETATM 56 H HMBB HEM . . . H 2 -19.428 -96.162 49.842 1 64.1 ? HMBB HEM 601 B 1 
HETATM 57 H HAB HEM . . . H 2 -20.627 -98.118 53.666 1 64.58 ? HAB HEM 601 B 1 
HETATM 58 H HBB HEM . . . H 2 -20.151 -99.481 51.863 1 63.57 ? HBB HEM 601 B 1 
HETATM 59 H HBBA HEM . . . H 2 -19.357 -98.184 51.154 1 63.57 ? HBBA HEM 601 B 1 
HETATM 60 H HMC HEM . . . H 2 -20.263 -96.416 58.894 1 69.25 ? HMC HEM 601 B 1 
HETATM 61 H HMCA HEM . . . H 2 -20.212 -96.979 57.42 1 69.25 ? HMCA HEM 601 B 1 
HETATM 62 H HMCB HEM . . . H 2 -21.585 -96.953 58.199 1 69.25 ? HMCB HEM 601 B 1 
HETATM 63 H HAC HEM . . . H 2 -21.432 -92.872 60.071 1 70.64 ? HAC HEM 601 B 1 
HETATM 64 H HBC HEM . . . H 2 -21.223 -94.678 61.493 1 70.8 ? HBC HEM 601 B 1 
HETATM 65 H HBCA HEM . . . H 2 -21.848 -95.648 60.276 1 70.8 ? HBCA HEM 601 B 1 
HETATM 66 H HMD HEM . . . H 2 -22.627 -87.656 58.343 1 70.17 ? HMD HEM 601 B 1 
HETATM 67 H HMDA HEM . . . H 2 -21.873 -88.9 59.007 1 70.17 ? HMDA HEM 601 B 1 
HETATM 68 H HMDB HEM . . . H 2 -23.424 -89.012 58.64 1 70.17 ? HMDB HEM 601 B 1 
HETATM 69 H HAD HEM . . . H 2 -22.859 -86.607 56.427 1 67.89 ? HAD HEM 601 B 1 
HETATM 70 H HADA HEM . . . H 2 -22.955 -86.824 54.86 1 67.89 ? HADA HEM 601 B 1 
HETATM 71 H HBD HEM . . . H 2 -20.592 -86.651 54.718 1 67.25 ? HBD HEM 601 B 1 
HETATM 72 H HBDA HEM . . . H 2 -20.538 -86.353 56.272 1 67.25 ? HBDA HEM 601 B 1 
HETATM 73 H HHA HEM . . . H 2 -21.479 -88.056 53.254 1 69.49 ? HHA HEM 601 B 1 
#
_model_server_stats.io_time_ms              19 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    39 
_model_server_stats.query_time_ms           286 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           73 
#