data_3PK1
#
_model_server_result.job_id            RvsdzkVc043kgTsdPqcyTA 
_model_server_result.datetime_utc      '2025-04-03 23:41:28' 
_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          3pk1 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"R","auth_seq_id":11}' 
#
_entry.id    3PK1 
#
_exptl.entry_id    3PK1 
_exptl.method      'X-RAY DIFFRACTION' 
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_entity.details                     ? 
_entity.formula_weight              112.411 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'CADMIUM ION' 
_entity.pdbx_number_of_molecules    18 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          124.23 
_cell.angle_gamma         90 
_cell.entry_id            3PK1 
_cell.length_a            97.923 
_cell.length_b            81.469 
_cell.length_c            57.927 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
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_symmetry.entry_id                 3PK1 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 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
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,W,X 1 1 
C,D,O,P,Q,R,S,T,U,V,Y,Z 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
? 3 E N N 
? 3 F N N 
? 3 G N N 
? 3 H N N 
? 3 I N N 
? 3 J N N 
? 3 K N N 
? 3 L N N 
? 3 M N N 
? 3 N N N 
? 3 O N N 
? 3 P N N 
? 3 Q N N 
? 3 R N N 
? 3 S N N 
? 3 T N N 
? 3 U N N 
? 3 V N N 
#
_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                     3PK1 
_atom_sites.fract_transf_matrix[1][1]    0.010212 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.006948 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.012275 
_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]    0.02088 
_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 3 CD A 1 1 1 CD CD . 
F 3 CD A 1 2 2 CD CD . 
G 3 CD A 1 5 5 CD CD . 
H 3 CD A 1 12 12 CD CD . 
I 3 CD A 1 13 13 CD CD . 
J 3 CD A 1 14 14 CD CD . 
K 3 CD A 1 17 17 CD CD . 
L 3 CD A 1 18 18 CD CD . 
M 3 CD B 1 7 7 CD CD . 
N 3 CD B 1 8 8 CD CD . 
O 3 CD C 1 3 3 CD CD . 
P 3 CD C 1 4 4 CD CD . 
Q 3 CD C 1 10 10 CD CD . 
R 3 CD C 1 11 11 CD CD . 
S 3 CD C 1 15 15 CD CD . 
T 3 CD C 1 16 16 CD CD . 
U 3 CD D 1 6 6 CD CD . 
V 3 CD D 1 9 9 CD CD . 
W 4 HOH A 1 8 8 HOH HOH . 
W 4 HOH A 2 10 10 HOH HOH . 
W 4 HOH A 3 11 11 HOH HOH . 
W 4 HOH A 4 23 23 HOH HOH . 
W 4 HOH A 5 27 27 HOH HOH . 
W 4 HOH A 6 29 29 HOH HOH . 
W 4 HOH A 7 30 30 HOH HOH . 
W 4 HOH A 8 31 31 HOH HOH . 
W 4 HOH A 9 32 32 HOH HOH . 
W 4 HOH A 10 33 33 HOH HOH . 
W 4 HOH A 11 35 35 HOH HOH . 
W 4 HOH A 12 38 38 HOH HOH . 
W 4 HOH A 13 39 39 HOH HOH . 
W 4 HOH A 14 40 40 HOH HOH . 
W 4 HOH A 15 41 41 HOH HOH . 
W 4 HOH A 16 47 47 HOH HOH . 
W 4 HOH A 17 48 48 HOH HOH . 
W 4 HOH A 18 327 1 HOH HOH . 
W 4 HOH A 19 328 12 HOH HOH . 
W 4 HOH A 20 329 13 HOH HOH . 
X 4 HOH B 1 15 15 HOH HOH . 
X 4 HOH B 2 18 18 HOH HOH . 
X 4 HOH B 3 19 19 HOH HOH . 
X 4 HOH B 4 37 37 HOH HOH . 
X 4 HOH B 5 42 42 HOH HOH . 
X 4 HOH B 6 45 45 HOH HOH . 
Y 4 HOH C 1 2 2 HOH HOH . 
Y 4 HOH C 2 5 5 HOH HOH . 
Y 4 HOH C 3 6 6 HOH HOH . 
Y 4 HOH C 4 7 7 HOH HOH . 
Y 4 HOH C 5 9 9 HOH HOH . 
Y 4 HOH C 6 14 14 HOH HOH . 
Y 4 HOH C 7 17 17 HOH HOH . 
Y 4 HOH C 8 21 21 HOH HOH . 
Y 4 HOH C 9 22 22 HOH HOH . 
Y 4 HOH C 10 24 24 HOH HOH . 
Y 4 HOH C 11 25 25 HOH HOH . 
Y 4 HOH C 12 26 26 HOH HOH . 
Y 4 HOH C 13 34 34 HOH HOH . 
Y 4 HOH C 14 36 36 HOH HOH . 
Y 4 HOH C 15 43 43 HOH HOH . 
Y 4 HOH C 16 44 44 HOH HOH . 
Y 4 HOH C 17 46 46 HOH HOH . 
Y 4 HOH C 18 49 49 HOH HOH . 
Y 4 HOH C 19 327 3 HOH HOH . 
Y 4 HOH C 20 328 4 HOH HOH . 
Y 4 HOH C 21 329 16 HOH HOH . 
Z 4 HOH D 1 20 20 HOH HOH . 
Z 4 HOH D 2 28 28 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       3 
_atom_site.Cartn_x               -9.477 
_atom_site.Cartn_y               -32.999 
_atom_site.Cartn_z               18.062 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        129.7 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          CD 
_atom_site.auth_comp_id          CD 
_atom_site.auth_seq_id           11 
_atom_site.auth_asym_id          C 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    13 
_model_server_stats.query_time_ms           321 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           1 
#