data_5OKF
#
_model_server_result.job_id            EoDkz93gF4zNMZUCziwDsQ 
_model_server_result.datetime_utc      '2024-11-04 22:19:10' 
_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          5okf 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"R","auth_seq_id":301}' 
#
_entry.id    5OKF 
#
_exptl.entry_id    5OKF 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              112.411 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'CADMIUM ION' 
_entity.pdbx_number_of_molecules    17 
_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            5OKF 
_cell.length_a            77.399 
_cell.length_b            97.76 
_cell.length_c            158.831 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5OKF 
_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 dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 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,B,E,F,G,H,I,J,K,L,M,N,O,V,W 1 1 
C,D,P,Q,R,S,T,U,X,Y 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 E N N 
? 2 F N N 
? 2 G N N 
? 2 H N N 
? 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 
? 2 Q N N 
? 2 R N N 
? 2 S N N 
? 2 T N N 
? 2 U 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 C SER 40 A SER 37 1_555 A N CSO 41 A CSO 38 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
covale ? covale2 A C CSO 41 A CSO 38 1_555 A N GLU 42 A GLU 39 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.353 ? 
covale ? covale3 A C ALA 242 A ALA 239 1_555 A N SEP 243 A SEP 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale4 A C SEP 243 A SEP 240 1_555 A N ALA 244 A ALA 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? 
covale ? covale5 B C SER 40 B SER 37 1_555 B N CSO 41 B CSO 38 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.36 ? 
covale ? covale6 B C CSO 41 B CSO 38 1_555 B N GLU 42 B GLU 39 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.359 ? 
covale ? covale7 B C ALA 242 B ALA 239 1_555 B N SEP 243 B SEP 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.311 ? 
covale ? covale8 B C SEP 243 B SEP 240 1_555 B N ALA 244 B ALA 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? 
covale ? covale9 C C SER 40 C SER 37 1_555 C N CSO 41 C CSO 38 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.38 ? 
covale ? covale10 C C CSO 41 C CSO 38 1_555 C N GLU 42 C GLU 39 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.346 ? 
covale ? covale11 C C ALA 242 C ALA 239 1_555 C N SEP 243 C SEP 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? 
covale ? covale12 C C SEP 243 C SEP 240 1_555 C N ALA 244 C ALA 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? 
covale ? covale13 D C SER 40 D SER 37 1_555 D N CSO 41 D CSO 38 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.393 ? 
covale ? covale14 D C CSO 41 D CSO 38 1_555 D N GLU 42 D GLU 39 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.365 ? 
covale ? covale15 D C ALA 242 D ALA 239 1_555 D N SEP 243 D SEP 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? 
covale ? covale16 D C SEP 243 D SEP 240 1_555 D N ALA 244 D ALA 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
metalc ? metalc1 A OD2 ASP 100 A ASP 97 1_555 I CD CD . A CD 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.596 ? 
metalc ? metalc2 A ND1 HIS 109 A HIS 106 1_555 F CD CD . A CD 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? 
metalc ? metalc3 A OE2 GLU 113 A GLU 110 1_555 F CD CD . A CD 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.206 ? 
metalc ? metalc4 A OE2 GLU 118 A GLU 115 1_555 E CD CD . A CD 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.285 ? 
metalc ? metalc5 F CD CD . A CD 302 1_555 D OD1 ASP 142 D ASP 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.504 ? 
metalc ? metalc6 B ND1 HIS 109 B HIS 106 1_555 J CD CD . B CD 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.56 ? 
metalc ? metalc7 B OE2 GLU 113 B GLU 110 1_555 J CD CD . B CD 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.902 ? 
metalc ? metalc8 B OD1 ASP 142 B ASP 139 1_555 O CD CD . B CD 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.522 ? 
metalc ? metalc9 J CD CD . B CD 301 1_555 C OD2 ASP 142 C ASP 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.559 ? 
metalc ? metalc10 O CD CD . B CD 306 1_555 C OE2 GLU 113 C GLU 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.341 ? 
metalc ? metalc11 C OE2 GLU 92 C GLU 89 1_555 P CD CD . C CD 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.582 ? 
metalc ? metalc12 C OE2 GLU 118 C GLU 115 1_555 Q CD CD . C CD 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.311 ? 
metalc ? metalc13 D SG CSO 41 D CSO 38 1_555 T CD CD . D CD 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.399 ? 
metalc ? metalc14 D OD CSO 41 D CSO 38 1_555 T CD CD . D CD 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.186 ? 
metalc ? metalc15 D OE2 GLU 113 D GLU 110 1_555 S CD CD . D CD 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? 
#
_chem_comp.formula           'Cd 2' 
_chem_comp.formula_weight    112.411 
_chem_comp.id                CD 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'CADMIUM ION' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
_atom_sites.entry_id                     5OKF 
_atom_sites.fract_transf_matrix[1][1]    0.01292 
_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]    0.010229 
_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]    0.006296 
_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 CD A 1 301 11 CD CD . 
F 2 CD A 1 302 19 CD CD . 
G 2 CD A 1 303 22 CD CD . 
H 2 CD A 1 304 27 CD CD . 
I 2 CD A 1 305 16 CD CD . 
J 2 CD B 1 301 5 CD CD . 
K 2 CD B 1 302 9 CD CD . 
L 2 CD B 1 303 13 CD CD . 
M 2 CD B 1 304 23 CD CD . 
N 2 CD B 1 305 25 CD CD . 
O 2 CD B 1 306 17 CD CD . 
P 2 CD C 1 301 15 CD CD . 
Q 2 CD C 1 302 26 CD CD . 
R 2 CD D 1 301 12 CD CD . 
S 2 CD D 1 302 20 CD CD . 
T 2 CD D 1 303 28 CD CD . 
U 2 CD D 1 304 29 CD CD . 
V 3 HOH A 1 401 15 HOH HOH . 
V 3 HOH A 2 402 16 HOH HOH . 
V 3 HOH A 3 403 14 HOH HOH . 
V 3 HOH A 4 404 11 HOH HOH . 
V 3 HOH A 5 405 10 HOH HOH . 
W 3 HOH B 1 401 19 HOH HOH . 
W 3 HOH B 2 402 1 HOH HOH . 
W 3 HOH B 3 403 17 HOH HOH . 
W 3 HOH B 4 404 7 HOH HOH . 
W 3 HOH B 5 405 22 HOH HOH . 
W 3 HOH B 6 406 13 HOH HOH . 
W 3 HOH B 7 407 4 HOH HOH . 
W 3 HOH B 8 408 2 HOH HOH . 
W 3 HOH B 9 409 18 HOH HOH . 
X 3 HOH C 1 401 12 HOH HOH . 
X 3 HOH C 2 402 8 HOH HOH . 
X 3 HOH C 3 403 20 HOH HOH . 
X 3 HOH C 4 404 21 HOH HOH . 
X 3 HOH C 5 405 5 HOH HOH . 
X 3 HOH C 6 406 6 HOH HOH . 
Y 3 HOH D 1 401 9 HOH HOH . 
Y 3 HOH D 2 402 3 HOH HOH . 
#
_atom_site.group_PDB             HETATM 
_atom_site.id                    1 
_atom_site.type_symbol           CD 
_atom_site.label_atom_id         CD 
_atom_site.label_comp_id         CD 
_atom_site.label_seq_id          . 
_atom_site.label_alt_id          . 
_atom_site.pdbx_PDB_ins_code     . 
_atom_site.label_asym_id         R 
_atom_site.label_entity_id       2 
_atom_site.Cartn_x               -27.228 
_atom_site.Cartn_y               42.225 
_atom_site.Cartn_z               -31.568 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        152.58 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          CD 
_atom_site.auth_comp_id          CD 
_atom_site.auth_seq_id           301 
_atom_site.auth_asym_id          D 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              31 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           295 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           1 
#