data_1KIB
#
_model_server_result.job_id            7_diFZvERsfv6CcWUkdwOw 
_model_server_result.datetime_utc      '2025-02-05 05:53:04' 
_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          1kib 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"O","auth_seq_id":90}' 
#
_entry.id    1KIB 
#
_exptl.entry_id    1KIB 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              618.503 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'HEME C' 
_entity.pdbx_number_of_molecules    8 
_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            1KIB 
_cell.length_a            237 
_cell.length_b            237 
_cell.length_c            237 
_cell.Z_PDB               384 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1KIB 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        214 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'I 41 3 2' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    24-meric 
_pdbx_struct_assembly.oligomeric_count      24 
_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,O,P 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2,3 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 5_555 z,x,y 0 0 1 1 0 0 0 1 0 0 0 0 
3 'crystal symmetry operation' 9_555 y,z,x 0 1 0 0 0 1 1 0 0 0 0 0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 I N N 
? 2 J N N 
? 2 K N N 
? 2 L N N 
? 2 M N N 
? 2 N N N 
? 2 O N N 
? 2 P 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
covale ? covale1 A SG CYS 14 A CYS 14 1_555 I CAB HEC . A HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.775 ? 
covale ? covale2 A SG CYS 17 A CYS 17 1_555 I CAC HEC . A HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.851 ? 
covale ? covale3 B SG CYS 14 B CYS 14 1_555 J CAB HEC . B HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.818 ? 
covale ? covale4 B SG CYS 17 B CYS 17 1_555 J CAC HEC . B HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.865 ? 
covale ? covale5 C SG CYS 14 C CYS 14 1_555 K CAB HEC . C HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.763 ? 
covale ? covale6 C SG CYS 17 C CYS 17 1_555 K CAC HEC . C HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.864 ? 
covale ? covale7 D SG CYS 14 D CYS 14 1_555 L CAB HEC . D HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.767 ? 
covale ? covale8 D SG CYS 17 D CYS 17 1_555 L CAC HEC . D HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.826 ? 
covale ? covale9 E SG CYS 14 E CYS 14 1_555 M CAB HEC . E HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.802 ? 
covale ? covale10 E SG CYS 17 E CYS 17 1_555 M CAC HEC . E HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.846 ? 
covale ? covale11 F SG CYS 14 F CYS 14 1_555 N CAB HEC . F HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.831 ? 
covale ? covale12 F SG CYS 17 F CYS 17 1_555 N CAC HEC . F HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.885 ? 
covale ? covale13 G SG CYS 14 G CYS 14 1_555 O CAB HEC . G HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.752 ? 
covale ? covale14 G SG CYS 17 G CYS 17 1_555 O CAC HEC . G HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.878 ? 
covale ? covale15 H SG CYS 14 H CYS 14 1_555 P CAB HEC . H HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.797 ? 
covale ? covale16 H SG CYS 17 H CYS 17 1_555 P CAC HEC . H HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.831 ? 
metalc ? metalc1 A NE2 HIS 18 A HIS 18 1_555 I FE HEC . A HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.999 ? 
metalc ? metalc2 A SD MET 62 A MET 62 1_555 I FE HEC . A HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.352 ? 
metalc ? metalc3 B NE2 HIS 18 B HIS 18 1_555 J FE HEC . B HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.977 ? 
metalc ? metalc4 B SD MET 62 B MET 62 1_555 J FE HEC . B HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? 
metalc ? metalc5 C NE2 HIS 18 C HIS 18 1_555 K FE HEC . C HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.969 ? 
metalc ? metalc6 C SD MET 62 C MET 62 1_555 K FE HEC . C HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.364 ? 
metalc ? metalc7 D NE2 HIS 18 D HIS 18 1_555 L FE HEC . D HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.004 ? 
metalc ? metalc8 D SD MET 62 D MET 62 1_555 L FE HEC . D HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.34 ? 
metalc ? metalc9 E NE2 HIS 18 E HIS 18 1_555 M FE HEC . E HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.969 ? 
metalc ? metalc10 E SD MET 62 E MET 62 1_555 M FE HEC . E HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.373 ? 
metalc ? metalc11 F NE2 HIS 18 F HIS 18 1_555 N FE HEC . F HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.004 ? 
metalc ? metalc12 F SD MET 62 F MET 62 1_555 N FE HEC . F HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.358 ? 
metalc ? metalc13 G NE2 HIS 18 G HIS 18 1_555 O FE HEC . G HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.954 ? 
metalc ? metalc14 G SD MET 62 G MET 62 1_555 O FE HEC . G HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.392 ? 
metalc ? metalc15 H NE2 HIS 18 H HIS 18 1_555 P FE HEC . H HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.947 ? 
metalc ? metalc16 H SD MET 62 H MET 62 1_555 P FE HEC . H HEC 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.397 ? 
#
_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     ? 
#
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
FE NA HEC sing 129 n n 
FE NB HEC sing 130 n n 
FE NC HEC sing 131 n n 
FE ND HEC sing 132 n n 
CHA C1A HEC doub 133 n n 
CHA C4D HEC sing 134 n n 
CHA HHA HEC sing 135 n n 
CHB C4A HEC doub 136 n n 
CHB C1B HEC sing 137 n n 
CHB HHB HEC sing 138 n n 
CHC C4B HEC doub 139 n n 
CHC C1C HEC sing 140 n n 
CHC HHC HEC sing 141 n n 
CHD C4C HEC doub 142 n n 
CHD C1D HEC sing 143 n n 
CHD HHD HEC sing 144 n n 
NA C1A HEC sing 145 n y 
NA C4A HEC sing 146 n y 
C1A C2A HEC sing 147 n y 
C2A C3A HEC doub 148 n y 
C2A CAA HEC sing 149 n n 
C3A C4A HEC sing 150 n y 
C3A CMA HEC sing 151 n n 
CMA HMA1 HEC sing 152 n n 
CMA HMA2 HEC sing 153 n n 
CMA HMA3 HEC sing 154 n n 
CAA CBA HEC sing 155 n n 
CAA HAA1 HEC sing 156 n n 
CAA HAA2 HEC sing 157 n n 
CBA CGA HEC sing 158 n n 
CBA HBA1 HEC sing 159 n n 
CBA HBA2 HEC sing 160 n n 
CGA O1A HEC doub 161 n n 
CGA O2A HEC sing 162 n n 
O2A H2A HEC sing 163 n n 
NB C1B HEC sing 164 n y 
NB C4B HEC sing 165 n y 
C1B C2B HEC doub 166 n y 
C2B C3B HEC sing 167 n y 
C2B CMB HEC sing 168 n n 
C3B C4B HEC sing 169 n y 
C3B CAB HEC doub 170 e n 
CMB HMB1 HEC sing 171 n n 
CMB HMB2 HEC sing 172 n n 
CMB HMB3 HEC sing 173 n n 
CAB CBB HEC sing 174 n n 
CAB HAB HEC sing 175 n n 
CBB HBB1 HEC sing 176 n n 
CBB HBB2 HEC sing 177 n n 
CBB HBB3 HEC sing 178 n n 
NC C1C HEC sing 179 n y 
NC C4C HEC sing 180 n y 
C1C C2C HEC doub 181 n y 
C2C C3C HEC sing 182 n y 
C2C CMC HEC sing 183 n n 
C3C C4C HEC sing 184 n y 
C3C CAC HEC doub 185 e n 
CMC HMC1 HEC sing 186 n n 
CMC HMC2 HEC sing 187 n n 
CMC HMC3 HEC sing 188 n n 
CAC CBC HEC sing 189 n n 
CAC HAC HEC sing 190 n n 
CBC HBC1 HEC sing 191 n n 
CBC HBC2 HEC sing 192 n n 
CBC HBC3 HEC sing 193 n n 
ND C1D HEC sing 194 n y 
ND C4D HEC sing 195 n y 
C1D C2D HEC doub 196 n y 
C2D C3D HEC sing 197 n y 
C2D CMD HEC sing 198 n n 
C3D C4D HEC doub 199 n y 
C3D CAD HEC sing 200 n n 
CMD HMD1 HEC sing 201 n n 
CMD HMD2 HEC sing 202 n n 
CMD HMD3 HEC sing 203 n n 
CAD CBD HEC sing 204 n n 
CAD HAD1 HEC sing 205 n n 
CAD HAD2 HEC sing 206 n n 
CBD CGD HEC sing 207 n n 
CBD HBD1 HEC sing 208 n n 
CBD HBD2 HEC sing 209 n n 
CGD O1D HEC doub 210 n n 
CGD O2D HEC sing 211 n n 
O2D H2D HEC sing 212 n n 
#
_atom_sites.entry_id                     1KIB 
_atom_sites.fract_transf_matrix[1][1]    0.004219 
_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]    0.004219 
_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]    0.004219 
_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 2 HEC A 1 90 90 HEC HEM . 
J 2 HEC B 1 90 90 HEC HEM . 
K 2 HEC C 1 90 90 HEC HEM . 
L 2 HEC D 1 90 90 HEC HEM . 
M 2 HEC E 1 90 90 HEC HEM . 
N 2 HEC F 1 90 90 HEC HEM . 
O 2 HEC G 1 90 90 HEC HEM . 
P 2 HEC H 1 90 90 HEC 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 FE FE HEC . . . O 2 18.776 25.74 -17.879 1 29.59 ? FE HEC 90 G 1 
HETATM 2 C CHA HEC . . . O 2 21.223 28.052 -17.383 1 30.2 ? CHA HEC 90 G 1 
HETATM 3 C CHB HEC . . . O 2 18.211 27.056 -20.949 1 28.22 ? CHB HEC 90 G 1 
HETATM 4 C CHC HEC . . . O 2 16.739 23.209 -18.674 1 29.34 ? CHC HEC 90 G 1 
HETATM 5 C CHD HEC . . . O 2 19.302 24.465 -14.83 1 30.89 ? CHD HEC 90 G 1 
HETATM 6 N NA HEC . . . O 2 19.523 27.224 -18.895 1 30.12 ? NA HEC 90 G 1 
HETATM 7 C C1A HEC . . . O 2 20.477 28.129 -18.512 1 30.08 ? C1A HEC 90 G 1 
HETATM 8 C C2A HEC . . . O 2 20.638 29.127 -19.509 1 31.05 ? C2A HEC 90 G 1 
HETATM 9 C C3A HEC . . . O 2 19.876 28.796 -20.547 1 30.08 ? C3A HEC 90 G 1 
HETATM 10 C C4A HEC . . . O 2 19.168 27.625 -20.167 1 29.69 ? C4A HEC 90 G 1 
HETATM 11 C CMA HEC . . . O 2 19.782 29.58 -21.845 1 29.82 ? CMA HEC 90 G 1 
HETATM 12 C CAA HEC . . . O 2 21.479 30.386 -19.422 1 32.66 ? CAA HEC 90 G 1 
HETATM 13 C CBA HEC . . . O 2 21.001 31.352 -18.371 1 34.87 ? CBA HEC 90 G 1 
HETATM 14 C CGA HEC . . . O 2 22.064 32.35 -18.007 1 35.25 ? CGA HEC 90 G 1 
HETATM 15 O O1A HEC . . . O 2 23.25 31.974 -18.027 1 36.38 ? O1A HEC 90 G 1 
HETATM 16 O O2A HEC . . . O 2 21.72 33.5 -17.688 1 36.33 ? O2A HEC 90 G 1 
HETATM 17 N NB HEC . . . O 2 17.689 25.277 -19.445 1 28.92 ? NB HEC 90 G 1 
HETATM 18 C C1B HEC . . . O 2 17.5 25.981 -20.576 1 27.99 ? C1B HEC 90 G 1 
HETATM 19 C C2B HEC . . . O 2 16.545 25.369 -21.41 1 28.67 ? C2B HEC 90 G 1 
HETATM 20 C C3B HEC . . . O 2 16.203 24.187 -20.885 1 29.14 ? C3B HEC 90 G 1 
HETATM 21 C C4B HEC . . . O 2 16.912 24.167 -19.631 1 29.33 ? C4B HEC 90 G 1 
HETATM 22 C CMB HEC . . . O 2 15.924 25.992 -22.65 1 29.88 ? CMB HEC 90 G 1 
HETATM 23 C CAB HEC . . . O 2 15.338 23.245 -21.436 1 28.78 ? CAB HEC 90 G 1 
HETATM 24 C CBB HEC . . . O 2 15.633 22.414 -22.479 1 27.75 ? CBB HEC 90 G 1 
HETATM 25 N NC HEC . . . O 2 18.192 24.168 -16.965 1 29.54 ? NC HEC 90 G 1 
HETATM 26 C C1C HEC . . . O 2 17.326 23.222 -17.434 1 29.26 ? C1C HEC 90 G 1 
HETATM 27 C C2C HEC . . . O 2 16.944 22.319 -16.433 1 29.89 ? C2C HEC 90 G 1 
HETATM 28 C C3C HEC . . . O 2 17.609 22.649 -15.298 1 30.89 ? C3C HEC 90 G 1 
HETATM 29 C C4C HEC . . . O 2 18.441 23.8 -15.681 1 29.91 ? C4C HEC 90 G 1 
HETATM 30 C CMC HEC . . . O 2 15.797 21.352 -16.568 1 30.68 ? CMC HEC 90 G 1 
HETATM 31 C CAC HEC . . . O 2 17.312 22.2 -13.97 1 32.18 ? CAC HEC 90 G 1 
HETATM 32 C CBC HEC . . . O 2 17.867 21.087 -13.36 1 29.91 ? CBC HEC 90 G 1 
HETATM 33 N ND HEC . . . O 2 19.967 26.167 -16.438 1 31.43 ? ND HEC 90 G 1 
HETATM 34 C C1D HEC . . . O 2 20.012 25.573 -15.189 1 31.95 ? C1D HEC 90 G 1 
HETATM 35 C C2D HEC . . . O 2 21.08 26.133 -14.387 1 32.94 ? C2D HEC 90 G 1 
HETATM 36 C C3D HEC . . . O 2 21.711 27.056 -15.127 1 34.04 ? C3D HEC 90 G 1 
HETATM 37 C C4D HEC . . . O 2 20.996 27.108 -16.411 1 32.21 ? C4D HEC 90 G 1 
HETATM 38 C CMD HEC . . . O 2 21.467 25.793 -12.977 1 33.14 ? CMD HEC 90 G 1 
HETATM 39 C CAD HEC . . . O 2 22.938 27.844 -14.708 1 36.81 ? CAD HEC 90 G 1 
HETATM 40 C CBD HEC . . . O 2 24.2 27.033 -14.913 1 40.67 ? CBD HEC 90 G 1 
HETATM 41 C CGD HEC . . . O 2 25.445 27.89 -14.895 1 43 ? CGD HEC 90 G 1 
HETATM 42 O O1D HEC . . . O 2 25.594 28.789 -15.779 1 43.36 ? O1D HEC 90 G 1 
HETATM 43 O O2D HEC . . . O 2 26.273 27.66 -13.985 1 44.43 ? O2D HEC 90 G 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           361 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           43 
#