data_5Y1Z
#
_model_server_result.job_id            xvOhp10l9OMICTI8rP6Qxg 
_model_server_result.datetime_utc      '2024-11-04 20:35:57' 
_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          5y1z 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":501}' 
#
_entry.id    5Y1Z 
#
_exptl.entry_id    5Y1Z 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              65.409 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'ZINC ION' 
_entity.pdbx_number_of_molecules    6 
_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            5Y1Z 
_cell.length_a            54.183 
_cell.length_b            138.095 
_cell.length_c            161.164 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5Y1Z 
_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,C,E,F,G,H,I,J,K,R,T 1 1 
B,D,L,M,N,O,P,Q,S,U 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
? 4 F N N 
? 4 G N N 
? 4 H N N 
? 4 L N N 
? 4 M N N 
? 4 N 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 C SG CYS 9 C CYS 91 1_555 F ZN ZN . C ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.456 ? 
metalc ? metalc2 C SG CYS 12 C CYS 94 1_555 F ZN ZN . C ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.347 ? 
metalc ? metalc3 C SG CYS 21 C CYS 103 1_555 H ZN ZN . C ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? 
metalc ? metalc4 C SG CYS 24 C CYS 106 1_555 H ZN ZN . C ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.275 ? 
metalc ? metalc5 C ND1 HIS 29 C HIS 111 1_555 F ZN ZN . C ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.089 ? 
metalc ? metalc6 C SG CYS 32 C CYS 114 1_555 F ZN ZN . C ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.328 ? 
metalc ? metalc7 C SG CYS 45 C CYS 127 1_555 H ZN ZN . C ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.41 ? 
metalc ? metalc8 C SG CYS 48 C CYS 130 1_555 H ZN ZN . C ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.208 ? 
metalc ? metalc9 C SG CYS 173 C CYS 255 1_555 G ZN ZN . C ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? 
metalc ? metalc10 C SG CYS 176 C CYS 258 1_555 G ZN ZN . C ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.307 ? 
metalc ? metalc11 C SG CYS 192 C CYS 274 1_555 G ZN ZN . C ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.522 ? 
metalc ? metalc12 C NE2 HIS 196 C HIS 278 1_555 G ZN ZN . C ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.203 ? 
metalc ? metalc13 D SG CYS 9 D CYS 91 1_555 M ZN ZN . D ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.348 ? 
metalc ? metalc14 D SG CYS 12 D CYS 94 1_555 M ZN ZN . D ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.236 ? 
metalc ? metalc15 D SG CYS 21 D CYS 103 1_555 L ZN ZN . D ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.397 ? 
metalc ? metalc16 D SG CYS 24 D CYS 106 1_555 L ZN ZN . D ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.293 ? 
metalc ? metalc17 D ND1 HIS 29 D HIS 111 1_555 M ZN ZN . D ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? 
metalc ? metalc18 D SG CYS 32 D CYS 114 1_555 M ZN ZN . D ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? 
metalc ? metalc19 D SG CYS 45 D CYS 127 1_555 L ZN ZN . D ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.422 ? 
metalc ? metalc20 D SG CYS 48 D CYS 130 1_555 L ZN ZN . D ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.352 ? 
metalc ? metalc21 D SG CYS 173 D CYS 255 1_555 N ZN ZN . D ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.196 ? 
metalc ? metalc22 D SG CYS 176 D CYS 258 1_555 N ZN ZN . D ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.364 ? 
metalc ? metalc23 D SG CYS 192 D CYS 274 1_555 N ZN ZN . D ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.426 ? 
metalc ? metalc24 D NE2 HIS 196 D HIS 278 1_555 N ZN ZN . D ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.222 ? 
#
_chem_comp.formula           'Zn 2' 
_chem_comp.formula_weight    65.409 
_chem_comp.id                ZN 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'ZINC ION' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
_atom_sites.entry_id                     5Y1Z 
_atom_sites.fract_transf_matrix[1][1]    0.018456 
_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]    0.007241 
_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]    0.006205 
_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 SO4 A 1 201 5 SO4 SO4 . 
F 4 ZN C 1 501 2 ZN ZN . 
G 4 ZN C 1 502 3 ZN ZN . 
H 4 ZN C 1 503 5 ZN ZN . 
I 3 SO4 C 1 504 3 SO4 SO4 . 
J 3 SO4 C 1 505 4 SO4 SO4 . 
K 3 SO4 C 1 506 6 SO4 SO4 . 
L 4 ZN D 1 501 1 ZN ZN . 
M 4 ZN D 1 502 4 ZN ZN . 
N 4 ZN D 1 503 6 ZN ZN . 
O 3 SO4 D 1 504 1 SO4 SO4 . 
P 3 SO4 D 1 505 2 SO4 SO4 . 
Q 5 GOL D 1 506 1 GOL GOL . 
R 6 HOH A 1 301 35 HOH HOH . 
R 6 HOH A 2 302 13 HOH HOH . 
R 6 HOH A 3 303 37 HOH HOH . 
R 6 HOH A 4 304 15 HOH HOH . 
R 6 HOH A 5 305 22 HOH HOH . 
R 6 HOH A 6 306 39 HOH HOH . 
R 6 HOH A 7 307 40 HOH HOH . 
R 6 HOH A 8 308 29 HOH HOH . 
S 6 HOH B 1 201 8 HOH HOH . 
S 6 HOH B 2 202 43 HOH HOH . 
S 6 HOH B 3 203 36 HOH HOH . 
T 6 HOH C 1 601 26 HOH HOH . 
T 6 HOH C 2 602 44 HOH HOH . 
T 6 HOH C 3 603 16 HOH HOH . 
T 6 HOH C 4 604 18 HOH HOH . 
T 6 HOH C 5 605 5 HOH HOH . 
T 6 HOH C 6 606 19 HOH HOH . 
T 6 HOH C 7 607 24 HOH HOH . 
T 6 HOH C 8 608 41 HOH HOH . 
T 6 HOH C 9 609 28 HOH HOH . 
T 6 HOH C 10 610 42 HOH HOH . 
T 6 HOH C 11 611 38 HOH HOH . 
T 6 HOH C 12 612 14 HOH HOH . 
T 6 HOH C 13 613 46 HOH HOH . 
U 6 HOH D 1 601 17 HOH HOH . 
U 6 HOH D 2 602 27 HOH HOH . 
U 6 HOH D 3 603 33 HOH HOH . 
U 6 HOH D 4 604 9 HOH HOH . 
U 6 HOH D 5 605 1 HOH HOH . 
U 6 HOH D 6 606 47 HOH HOH . 
U 6 HOH D 7 607 32 HOH HOH . 
U 6 HOH D 8 608 49 HOH HOH . 
U 6 HOH D 9 609 48 HOH HOH . 
U 6 HOH D 10 610 20 HOH HOH . 
U 6 HOH D 11 611 51 HOH HOH . 
U 6 HOH D 12 612 2 HOH HOH . 
U 6 HOH D 13 613 50 HOH HOH . 
U 6 HOH D 14 614 6 HOH HOH . 
U 6 HOH D 15 615 10 HOH HOH . 
U 6 HOH D 16 616 4 HOH HOH . 
U 6 HOH D 17 617 23 HOH HOH . 
U 6 HOH D 18 618 25 HOH HOH . 
U 6 HOH D 19 619 12 HOH HOH . 
U 6 HOH D 20 620 45 HOH HOH . 
U 6 HOH D 21 621 7 HOH HOH . 
U 6 HOH D 22 622 21 HOH HOH . 
U 6 HOH D 23 623 31 HOH HOH . 
U 6 HOH D 24 624 34 HOH HOH . 
#
_atom_site.group_PDB             HETATM 
_atom_site.id                    1 
_atom_site.type_symbol           ZN 
_atom_site.label_atom_id         ZN 
_atom_site.label_comp_id         ZN 
_atom_site.label_seq_id          . 
_atom_site.label_alt_id          . 
_atom_site.pdbx_PDB_ins_code     . 
_atom_site.label_asym_id         L 
_atom_site.label_entity_id       4 
_atom_site.Cartn_x               19.453 
_atom_site.Cartn_y               27.448 
_atom_site.Cartn_z               5.867 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        53.05 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          ZN 
_atom_site.auth_comp_id          ZN 
_atom_site.auth_seq_id           501 
_atom_site.auth_asym_id          D 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              22 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    27 
_model_server_stats.query_time_ms           281 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           1 
#