data_5ZYP
#
_model_server_result.job_id            RZGgBIEgyuOD9pxNJ92Dfg 
_model_server_result.datetime_utc      '2024-10-19 17:42:13' 
_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          5zyp 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":802}' 
#
_entry.id    5ZYP 
#
_exptl.entry_id    5ZYP 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              58.693 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'NICKEL (II) ION' 
_entity.pdbx_number_of_molecules    3 
_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         120 
_cell.entry_id            5ZYP 
_cell.length_a            95.953 
_cell.length_b            95.953 
_cell.length_c            115.498 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5ZYP 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        154 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 32 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
_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
? 2 B N N 
? 2 C N N 
? 2 D 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 12 A SER 12 1_555 A N MSE 13 A MSE 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? 
covale ? covale2 A C MSE 13 A MSE 13 1_555 A N GLU 14 A GLU 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? 
covale ? covale3 A C GLU 80 A GLU 80 1_555 A N MSE 81 A MSE 81 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale4 A C MSE 81 A MSE 81 1_555 A N ALA 82 A ALA 82 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? 
metalc ? metalc1 A NE2 HIS 102 A HIS 102 1_555 D NI NI . A NI 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.245 ? 
covale ? covale5 A C ASN 140 A ASN 140 1_555 A N MSE 141 A MSE 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? 
covale ? covale6 A C MSE 141 A MSE 141 1_555 A N LEU 142 A LEU 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.342 ? 
metalc ? metalc2 A NE2 HIS 169 A HIS 169 1_555 B NI NI . A NI 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.99 ? 
metalc ? metalc3 A NE2 HIS 173 A HIS 173 1_555 B NI NI . A NI 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.493 ? 
covale ? covale7 A C TYR 199 A TYR 199 1_555 A N MSE 200 A MSE 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? 
covale ? covale8 A C MSE 200 A MSE 200 1_555 A N ALA 201 A ALA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? 
covale ? covale9 A C LYS 235 A LYS 235 1_555 A N MSE 236 A MSE 236 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale10 A C MSE 236 A MSE 236 1_555 A N ALA 237 A ALA 237 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? 
covale ? covale11 A C GLY 350 A GLY 1063 1_555 A N MSE 351 A MSE 1064 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? 
covale ? covale12 A C MSE 351 A MSE 1064 1_555 A N PRO 352 A PRO 1065 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? 
covale ? covale13 A C LEU 355 A LEU 1068 1_555 A N MSE 356 A MSE 1069 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
covale ? covale14 A C MSE 356 A MSE 1069 1_555 A N LYS 357 A LYS 1070 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
metalc ? metalc4 B NI NI . A NI 801 1_555 E O HOH . A HOH 954 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.208 ? 
metalc ? metalc5 B NI NI . A NI 801 1_555 E O HOH . A HOH 964 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.743 ? 
metalc ? metalc6 D NI NI . A NI 803 1_555 E O HOH . A HOH 978 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.519 ? 
metalc ? metalc7 A NE2 HIS 118 A HIS 118 1_555 D NI NI . A NI 803 4_556 ? ? ? ? ? ? ? ? ? ? ? ? 2.123 ? 
#
_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                     5ZYP 
_atom_sites.fract_transf_matrix[1][1]    0.010422 
_atom_sites.fract_transf_matrix[1][2]    0.006017 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.012034 
_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]    0.008658 
_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
B 2 NI A 1 801 1 NI NI . 
C 2 NI A 1 802 2 NI NI . 
D 2 NI A 1 803 3 NI NI . 
E 3 HOH A 1 901 15 HOH HOH . 
E 3 HOH A 2 902 67 HOH HOH . 
E 3 HOH A 3 903 14 HOH HOH . 
E 3 HOH A 4 904 83 HOH HOH . 
E 3 HOH A 5 905 20 HOH HOH . 
E 3 HOH A 6 906 25 HOH HOH . 
E 3 HOH A 7 907 74 HOH HOH . 
E 3 HOH A 8 908 36 HOH HOH . 
E 3 HOH A 9 909 24 HOH HOH . 
E 3 HOH A 10 910 38 HOH HOH . 
E 3 HOH A 11 911 4 HOH HOH . 
E 3 HOH A 12 912 43 HOH HOH . 
E 3 HOH A 13 913 52 HOH HOH . 
E 3 HOH A 14 914 61 HOH HOH . 
E 3 HOH A 15 915 55 HOH HOH . 
E 3 HOH A 16 916 18 HOH HOH . 
E 3 HOH A 17 917 70 HOH HOH . 
E 3 HOH A 18 918 39 HOH HOH . 
E 3 HOH A 19 919 81 HOH HOH . 
E 3 HOH A 20 920 44 HOH HOH . 
E 3 HOH A 21 921 27 HOH HOH . 
E 3 HOH A 22 922 1 HOH HOH . 
E 3 HOH A 23 923 21 HOH HOH . 
E 3 HOH A 24 924 64 HOH HOH . 
E 3 HOH A 25 925 75 HOH HOH . 
E 3 HOH A 26 926 6 HOH HOH . 
E 3 HOH A 27 927 31 HOH HOH . 
E 3 HOH A 28 928 76 HOH HOH . 
E 3 HOH A 29 929 35 HOH HOH . 
E 3 HOH A 30 930 41 HOH HOH . 
E 3 HOH A 31 931 12 HOH HOH . 
E 3 HOH A 32 932 77 HOH HOH . 
E 3 HOH A 33 933 37 HOH HOH . 
E 3 HOH A 34 934 10 HOH HOH . 
E 3 HOH A 35 935 72 HOH HOH . 
E 3 HOH A 36 936 28 HOH HOH . 
E 3 HOH A 37 937 16 HOH HOH . 
E 3 HOH A 38 938 5 HOH HOH . 
E 3 HOH A 39 939 7 HOH HOH . 
E 3 HOH A 40 940 13 HOH HOH . 
E 3 HOH A 41 941 29 HOH HOH . 
E 3 HOH A 42 942 34 HOH HOH . 
E 3 HOH A 43 943 23 HOH HOH . 
E 3 HOH A 44 944 53 HOH HOH . 
E 3 HOH A 45 945 69 HOH HOH . 
E 3 HOH A 46 946 3 HOH HOH . 
E 3 HOH A 47 947 50 HOH HOH . 
E 3 HOH A 48 948 48 HOH HOH . 
E 3 HOH A 49 949 30 HOH HOH . 
E 3 HOH A 50 950 9 HOH HOH . 
E 3 HOH A 51 951 33 HOH HOH . 
E 3 HOH A 52 952 32 HOH HOH . 
E 3 HOH A 53 953 60 HOH HOH . 
E 3 HOH A 54 954 85 HOH HOH . 
E 3 HOH A 55 955 40 HOH HOH . 
E 3 HOH A 56 956 62 HOH HOH . 
E 3 HOH A 57 957 54 HOH HOH . 
E 3 HOH A 58 958 17 HOH HOH . 
E 3 HOH A 59 959 2 HOH HOH . 
E 3 HOH A 60 960 42 HOH HOH . 
E 3 HOH A 61 961 22 HOH HOH . 
E 3 HOH A 62 962 73 HOH HOH . 
E 3 HOH A 63 963 46 HOH HOH . 
E 3 HOH A 64 964 84 HOH HOH . 
E 3 HOH A 65 965 19 HOH HOH . 
E 3 HOH A 66 966 79 HOH HOH . 
E 3 HOH A 67 967 51 HOH HOH . 
E 3 HOH A 68 968 49 HOH HOH . 
E 3 HOH A 69 969 80 HOH HOH . 
E 3 HOH A 70 970 26 HOH HOH . 
E 3 HOH A 71 971 63 HOH HOH . 
E 3 HOH A 72 972 47 HOH HOH . 
E 3 HOH A 73 973 58 HOH HOH . 
E 3 HOH A 74 974 57 HOH HOH . 
E 3 HOH A 75 975 71 HOH HOH . 
E 3 HOH A 76 976 65 HOH HOH . 
E 3 HOH A 77 977 11 HOH HOH . 
E 3 HOH A 78 978 8 HOH HOH . 
E 3 HOH A 79 979 45 HOH HOH . 
E 3 HOH A 80 980 56 HOH HOH . 
E 3 HOH A 81 981 59 HOH HOH . 
E 3 HOH A 82 982 78 HOH HOH . 
E 3 HOH A 83 983 82 HOH HOH . 
E 3 HOH A 84 984 68 HOH HOH . 
E 3 HOH A 85 985 66 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         C 
_atom_site.label_entity_id       2 
_atom_site.Cartn_x               13.858 
_atom_site.Cartn_y               24.002 
_atom_site.Cartn_z               57.749 
_atom_site.occupancy             0.5 
_atom_site.B_iso_or_equiv        42.51 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          NI 
_atom_site.auth_comp_id          NI 
_atom_site.auth_seq_id           802 
_atom_site.auth_asym_id          A 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              103 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           268 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           1 
#