data_8DRD
#
_model_server_result.job_id            dEy-r1kifMYCjU834fYZaw 
_model_server_result.datetime_utc      '2024-11-15 09:32:57' 
_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          8drd 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":202}' 
#
_entry.id    8DRD 
#
_exptl.entry_id    8DRD 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              58.693 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'NICKEL (II) ION' 
_entity.pdbx_number_of_molecules    2 
_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            8DRD 
_cell.length_a            42.09 
_cell.length_b            55.43 
_cell.length_c            101.97 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8DRD 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    'P 2ac 2ab' 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H,I 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    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 D N N 
? 3 G 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
disulf ? disulf1 A SG CYS 96 A CYS 96 1_555 B SG CYS 96 B CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? 
covale ? covale1 A SG CYS 98 A CYS 98 1_555 C CAB HEC . A HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.768 ? 
covale ? covale2 A SG CYS 101 A CYS 101 1_555 C CAC HEC . A HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.773 ? 
covale ? covale3 B SG CYS 98 B CYS 98 1_555 F CAB HEC . B HEC 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.773 ? 
covale ? covale4 B SG CYS 101 B CYS 101 1_555 F CAC HEC . B HEC 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.769 ? 
metalc ? metalc1 A SD MET 7 A MET 7 1_555 C FE HEC . A HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.401 ? 
metalc ? metalc2 A NE2 HIS 60 A HIS 60 1_555 D NI NI . A NI 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.092 ? 
metalc ? metalc3 A NE2 HIS 102 A HIS 102 1_555 C FE HEC . A HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.121 ? 
metalc ? metalc4 A NE2 HIS 104 A HIS 104 1_555 D NI NI . A NI 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? 
metalc ? metalc5 D NI NI . A NI 202 1_555 H O HOH . A HOH 334 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.141 ? 
metalc ? metalc6 D NI NI . A NI 202 1_555 B NE2 HIS 100 B HIS 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.149 ? 
metalc ? metalc7 D NI NI . A NI 202 1_555 B NE2 HIS 104 B HIS 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? 
metalc ? metalc8 D NI NI . A NI 202 1_555 I O HOH . B HOH 319 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.137 ? 
metalc ? metalc9 B OD2 ASP 2 B ASP 2 1_555 G NI NI . B NI 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.137 ? 
metalc ? metalc10 B SD MET 7 B MET 7 1_555 F FE HEC . B HEC 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.453 ? 
metalc ? metalc11 B NE2 HIS 102 B HIS 102 1_555 F FE HEC . B HEC 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.175 ? 
#
_chem_comp.formula           'Ni 2' 
_chem_comp.formula_weight    58.693 
_chem_comp.id                NI 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'NICKEL (II) ION' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
_atom_sites.entry_id                     8DRD 
_atom_sites.fract_transf_matrix[1][1]    0.023759 
_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]    0.018041 
_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]    0.009807 
_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
C 2 HEC A 1 201 150 HEC HEM . 
D 3 NI A 1 202 1 NI NI . 
E 4 MPD B 1 201 201 MPD MPD . 
F 2 HEC B 1 202 150 HEC HEM . 
G 3 NI B 1 203 2 NI NI . 
H 5 HOH A 1 301 32 HOH HOH . 
H 5 HOH A 2 302 11 HOH HOH . 
H 5 HOH A 3 303 12 HOH HOH . 
H 5 HOH A 4 304 60 HOH HOH . 
H 5 HOH A 5 305 54 HOH HOH . 
H 5 HOH A 6 306 41 HOH HOH . 
H 5 HOH A 7 307 16 HOH HOH . 
H 5 HOH A 8 308 38 HOH HOH . 
H 5 HOH A 9 309 51 HOH HOH . 
H 5 HOH A 10 310 30 HOH HOH . 
H 5 HOH A 11 311 56 HOH HOH . 
H 5 HOH A 12 312 17 HOH HOH . 
H 5 HOH A 13 313 14 HOH HOH . 
H 5 HOH A 14 314 39 HOH HOH . 
H 5 HOH A 15 315 42 HOH HOH . 
H 5 HOH A 16 316 59 HOH HOH . 
H 5 HOH A 17 317 47 HOH HOH . 
H 5 HOH A 18 318 3 HOH HOH . 
H 5 HOH A 19 319 22 HOH HOH . 
H 5 HOH A 20 320 18 HOH HOH . 
H 5 HOH A 21 321 44 HOH HOH . 
H 5 HOH A 22 322 65 HOH HOH . 
H 5 HOH A 23 323 23 HOH HOH . 
H 5 HOH A 24 324 71 HOH HOH . 
H 5 HOH A 25 325 72 HOH HOH . 
H 5 HOH A 26 326 34 HOH HOH . 
H 5 HOH A 27 327 63 HOH HOH . 
H 5 HOH A 28 328 28 HOH HOH . 
H 5 HOH A 29 329 76 HOH HOH . 
H 5 HOH A 30 330 50 HOH HOH . 
H 5 HOH A 31 331 9 HOH HOH . 
H 5 HOH A 32 332 45 HOH HOH . 
H 5 HOH A 33 333 25 HOH HOH . 
H 5 HOH A 34 334 5 HOH HOH . 
H 5 HOH A 35 335 24 HOH HOH . 
H 5 HOH A 36 336 4 HOH HOH . 
H 5 HOH A 37 337 2 HOH HOH . 
H 5 HOH A 38 338 57 HOH HOH . 
H 5 HOH A 39 339 20 HOH HOH . 
H 5 HOH A 40 340 13 HOH HOH . 
H 5 HOH A 41 341 79 HOH HOH . 
H 5 HOH A 42 342 37 HOH HOH . 
H 5 HOH A 43 343 33 HOH HOH . 
H 5 HOH A 44 344 46 HOH HOH . 
H 5 HOH A 45 345 70 HOH HOH . 
H 5 HOH A 46 346 43 HOH HOH . 
H 5 HOH A 47 347 35 HOH HOH . 
H 5 HOH A 48 348 61 HOH HOH . 
H 5 HOH A 49 349 1 HOH HOH . 
H 5 HOH A 50 350 36 HOH HOH . 
I 5 HOH B 1 301 66 HOH HOH . 
I 5 HOH B 2 302 55 HOH HOH . 
I 5 HOH B 3 303 10 HOH HOH . 
I 5 HOH B 4 304 48 HOH HOH . 
I 5 HOH B 5 305 29 HOH HOH . 
I 5 HOH B 6 306 31 HOH HOH . 
I 5 HOH B 7 307 75 HOH HOH . 
I 5 HOH B 8 308 68 HOH HOH . 
I 5 HOH B 9 309 67 HOH HOH . 
I 5 HOH B 10 310 15 HOH HOH . 
I 5 HOH B 11 311 6 HOH HOH . 
I 5 HOH B 12 312 74 HOH HOH . 
I 5 HOH B 13 313 27 HOH HOH . 
I 5 HOH B 14 314 73 HOH HOH . 
I 5 HOH B 15 315 58 HOH HOH . 
I 5 HOH B 16 316 49 HOH HOH . 
I 5 HOH B 17 317 19 HOH HOH . 
I 5 HOH B 18 318 40 HOH HOH . 
I 5 HOH B 19 319 7 HOH HOH . 
I 5 HOH B 20 320 21 HOH HOH . 
I 5 HOH B 21 321 52 HOH HOH . 
I 5 HOH B 22 322 78 HOH HOH . 
I 5 HOH B 23 323 77 HOH HOH . 
I 5 HOH B 24 324 8 HOH HOH . 
I 5 HOH B 25 325 69 HOH HOH . 
I 5 HOH B 26 326 53 HOH HOH . 
I 5 HOH B 27 327 26 HOH HOH . 
I 5 HOH B 28 328 62 HOH HOH . 
I 5 HOH B 29 329 64 HOH HOH . 
#
_atom_site.group_PDB             HETATM 
_atom_site.id                    1 
_atom_site.type_symbol           NI 
_atom_site.label_atom_id         NI 
_atom_site.label_comp_id         NI 
_atom_site.label_seq_id          . 
_atom_site.label_alt_id          . 
_atom_site.pdbx_PDB_ins_code     . 
_atom_site.label_asym_id         D 
_atom_site.label_entity_id       3 
_atom_site.Cartn_x               3.823 
_atom_site.Cartn_y               -8.185 
_atom_site.Cartn_z               -5.203 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        11.71 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          NI 
_atom_site.auth_comp_id          NI 
_atom_site.auth_seq_id           202 
_atom_site.auth_asym_id          A 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           283 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           1 
#