data_2ISY # _model_server_result.job_id 2-StQ7CiLwXP3aHObCfdzA _model_server_result.datetime_utc '2025-03-06 08:17:13' _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 2isy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1002}' # _entry.id 2ISY # _exptl.entry_id 2ISY _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 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 110.18 _cell.angle_beta 96.57 _cell.angle_gamma 108.29 _cell.entry_id 2ISY _cell.length_a 41.954 _cell.length_b 44.743 _cell.length_c 49.641 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2ISY _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _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,J _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 C N N ? 2 D N N ? 2 F N N ? 2 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 covale ? covale1 A C ALA 101 A ALA 101 1_555 A N CSO 102 A CSO 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale2 A C CSO 102 A CSO 102 1_555 A N ARG 103 A ARG 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.339 ? covale ? covale3 B C ALA 101 B ALA 101 1_555 B N CSO 102 B CSO 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? covale ? covale4 B C CSO 102 B CSO 102 1_555 B N ARG 103 B ARG 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? metalc ? metalc1 A SD MET 10 A MET 10 1_555 D NI NI . A NI 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.418 ? metalc ? metalc2 A NE2 HIS 79 A HIS 79 1_555 C NI NI . A NI 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? metalc ? metalc3 A OE2 GLU 83 A GLU 83 1_555 C NI NI . A NI 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.144 ? metalc ? metalc4 A ND1 HIS 98 A HIS 98 1_555 C NI NI . A NI 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.151 ? metalc ? metalc5 A OD CSO 102 A CSO 102 1_555 D NI NI . A NI 1002 1_555 ? A ? ? ? ? ? ? ? ? ? ? 1.906 ? metalc ? metalc6 A O CSO 102 A CSO 102 1_555 D NI NI . A NI 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.148 ? metalc ? metalc7 A OE2 GLU 105 A GLU 105 1_555 D NI NI . A NI 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? metalc ? metalc8 A NE2 HIS 106 A HIS 106 1_555 D NI NI . A NI 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? metalc ? metalc9 C NI NI . A NI 1001 1_555 E O4 PO4 . A PO4 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.173 ? metalc ? metalc10 C NI NI . A NI 1001 1_555 I O HOH . A HOH 2017 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.365 ? metalc ? metalc11 C NI NI . A NI 1001 1_555 I O HOH . A HOH 2020 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.192 ? metalc ? metalc12 D NI NI . A NI 1002 1_555 I O HOH . A HOH 2043 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.207 ? metalc ? metalc13 B SD MET 10 B MET 10 1_555 G NI NI . B NI 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.473 ? metalc ? metalc14 B NE2 HIS 79 B HIS 79 1_555 F NI NI . B NI 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? metalc ? metalc15 B OE2 GLU 83 B GLU 83 1_555 F NI NI . B NI 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.111 ? metalc ? metalc16 B ND1 HIS 98 B HIS 98 1_555 F NI NI . B NI 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.108 ? metalc ? metalc17 B O CSO 102 B CSO 102 1_555 G NI NI . B NI 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.083 ? metalc ? metalc18 B OD CSO 102 B CSO 102 1_555 G NI NI . B NI 1002 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.115 ? metalc ? metalc19 B OE2 GLU 105 B GLU 105 1_555 G NI NI . B NI 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.115 ? metalc ? metalc20 B NE2 HIS 106 B HIS 106 1_555 G NI NI . B NI 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.978 ? metalc ? metalc21 F NI NI . B NI 1001 1_555 H O3 PO4 . B PO4 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.253 ? metalc ? metalc22 F NI NI . B NI 1001 1_555 J O HOH . B HOH 2017 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? metalc ? metalc23 F NI NI . B NI 1001 1_555 J O HOH . B HOH 2046 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.188 ? metalc ? metalc24 G NI NI . B NI 1002 1_555 J O HOH . B HOH 2013 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.179 ? # _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 2ISY _atom_sites.fract_transf_matrix[1][1] 0.023836 _atom_sites.fract_transf_matrix[1][2] 0.007878 _atom_sites.fract_transf_matrix[1][3] 0.006478 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.023539 _atom_sites.fract_transf_matrix[2][3] 0.01039 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.022165 _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 NI A 1 1001 1001 NI NI . D 2 NI A 1 1002 1002 NI NI . E 3 PO4 A 1 2001 2001 PO4 PO4 . F 2 NI B 1 1001 1001 NI NI . G 2 NI B 1 1002 1002 NI NI . H 3 PO4 B 1 2001 2001 PO4 PO4 . I 4 HOH A 1 2002 1 HOH HOH . I 4 HOH A 2 2003 2 HOH HOH . I 4 HOH A 3 2004 3 HOH HOH . I 4 HOH A 4 2005 5 HOH HOH . I 4 HOH A 5 2006 6 HOH HOH . I 4 HOH A 6 2007 8 HOH HOH . I 4 HOH A 7 2008 9 HOH HOH . I 4 HOH A 8 2009 10 HOH HOH . I 4 HOH A 9 2010 11 HOH HOH . I 4 HOH A 10 2011 20 HOH HOH . I 4 HOH A 11 2012 21 HOH HOH . I 4 HOH A 12 2013 23 HOH HOH . I 4 HOH A 13 2014 24 HOH HOH . I 4 HOH A 14 2015 26 HOH HOH . I 4 HOH A 15 2016 27 HOH HOH . I 4 HOH A 16 2017 28 HOH HOH . I 4 HOH A 17 2018 29 HOH HOH . I 4 HOH A 18 2019 30 HOH HOH . I 4 HOH A 19 2020 31 HOH HOH . I 4 HOH A 20 2021 32 HOH HOH . I 4 HOH A 21 2022 33 HOH HOH . I 4 HOH A 22 2023 34 HOH HOH . I 4 HOH A 23 2024 35 HOH HOH . I 4 HOH A 24 2025 39 HOH HOH . I 4 HOH A 25 2026 40 HOH HOH . I 4 HOH A 26 2027 42 HOH HOH . I 4 HOH A 27 2028 45 HOH HOH . I 4 HOH A 28 2029 47 HOH HOH . I 4 HOH A 29 2030 48 HOH HOH . I 4 HOH A 30 2031 49 HOH HOH . I 4 HOH A 31 2032 51 HOH HOH . I 4 HOH A 32 2033 52 HOH HOH . I 4 HOH A 33 2034 53 HOH HOH . I 4 HOH A 34 2035 54 HOH HOH . I 4 HOH A 35 2036 55 HOH HOH . I 4 HOH A 36 2037 56 HOH HOH . I 4 HOH A 37 2038 57 HOH HOH . I 4 HOH A 38 2039 59 HOH HOH . I 4 HOH A 39 2040 60 HOH HOH . I 4 HOH A 40 2041 61 HOH HOH . I 4 HOH A 41 2042 62 HOH HOH . I 4 HOH A 42 2043 64 HOH HOH . I 4 HOH A 43 2044 65 HOH HOH . I 4 HOH A 44 2045 66 HOH HOH . I 4 HOH A 45 2046 67 HOH HOH . I 4 HOH A 46 2047 69 HOH HOH . I 4 HOH A 47 2048 75 HOH HOH . I 4 HOH A 48 2049 76 HOH HOH . I 4 HOH A 49 2050 77 HOH HOH . I 4 HOH A 50 2051 78 HOH HOH . I 4 HOH A 51 2052 79 HOH HOH . I 4 HOH A 52 2053 80 HOH HOH . I 4 HOH A 53 2054 81 HOH HOH . I 4 HOH A 54 2055 82 HOH HOH . I 4 HOH A 55 2056 84 HOH HOH . I 4 HOH A 56 2057 85 HOH HOH . I 4 HOH A 57 2058 86 HOH HOH . I 4 HOH A 58 2059 90 HOH HOH . I 4 HOH A 59 2060 93 HOH HOH . I 4 HOH A 60 2061 94 HOH HOH . I 4 HOH A 61 2062 95 HOH HOH . I 4 HOH A 62 2063 97 HOH HOH . I 4 HOH A 63 2064 101 HOH HOH . I 4 HOH A 64 2065 102 HOH HOH . I 4 HOH A 65 2066 104 HOH HOH . I 4 HOH A 66 2067 112 HOH HOH . I 4 HOH A 67 2068 113 HOH HOH . I 4 HOH A 68 2069 114 HOH HOH . I 4 HOH A 69 2070 115 HOH HOH . I 4 HOH A 70 2071 116 HOH HOH . I 4 HOH A 71 2072 117 HOH HOH . I 4 HOH A 72 2073 118 HOH HOH . I 4 HOH A 73 2074 119 HOH HOH . I 4 HOH A 74 2075 120 HOH HOH . I 4 HOH A 75 2076 122 HOH HOH . I 4 HOH A 76 2077 124 HOH HOH . I 4 HOH A 77 2078 125 HOH HOH . I 4 HOH A 78 2079 128 HOH HOH . I 4 HOH A 79 2080 130 HOH HOH . I 4 HOH A 80 2081 133 HOH HOH . I 4 HOH A 81 2082 134 HOH HOH . I 4 HOH A 82 2083 135 HOH HOH . I 4 HOH A 83 2084 138 HOH HOH . I 4 HOH A 84 2085 139 HOH HOH . I 4 HOH A 85 2086 142 HOH HOH . I 4 HOH A 86 2087 148 HOH HOH . J 4 HOH B 1 2002 4 HOH HOH . J 4 HOH B 2 2003 7 HOH HOH . J 4 HOH B 3 2004 12 HOH HOH . J 4 HOH B 4 2005 13 HOH HOH . J 4 HOH B 5 2006 14 HOH HOH . J 4 HOH B 6 2007 15 HOH HOH . J 4 HOH B 7 2008 16 HOH HOH . J 4 HOH B 8 2009 17 HOH HOH . J 4 HOH B 9 2010 18 HOH HOH . J 4 HOH B 10 2011 19 HOH HOH . J 4 HOH B 11 2012 22 HOH HOH . J 4 HOH B 12 2013 25 HOH HOH . J 4 HOH B 13 2014 36 HOH HOH . J 4 HOH B 14 2015 37 HOH HOH . J 4 HOH B 15 2016 38 HOH HOH . J 4 HOH B 16 2017 41 HOH HOH . J 4 HOH B 17 2018 43 HOH HOH . J 4 HOH B 18 2019 44 HOH HOH . J 4 HOH B 19 2020 46 HOH HOH . J 4 HOH B 20 2021 50 HOH HOH . J 4 HOH B 21 2022 58 HOH HOH . J 4 HOH B 22 2023 63 HOH HOH . J 4 HOH B 23 2024 68 HOH HOH . J 4 HOH B 24 2025 70 HOH HOH . J 4 HOH B 25 2026 71 HOH HOH . J 4 HOH B 26 2027 72 HOH HOH . J 4 HOH B 27 2028 73 HOH HOH . J 4 HOH B 28 2029 74 HOH HOH . J 4 HOH B 29 2030 83 HOH HOH . J 4 HOH B 30 2031 87 HOH HOH . J 4 HOH B 31 2032 88 HOH HOH . J 4 HOH B 32 2033 89 HOH HOH . J 4 HOH B 33 2034 91 HOH HOH . J 4 HOH B 34 2035 92 HOH HOH . J 4 HOH B 35 2036 96 HOH HOH . J 4 HOH B 36 2037 98 HOH HOH . J 4 HOH B 37 2038 99 HOH HOH . J 4 HOH B 38 2039 100 HOH HOH . J 4 HOH B 39 2040 103 HOH HOH . J 4 HOH B 40 2041 105 HOH HOH . J 4 HOH B 41 2042 106 HOH HOH . J 4 HOH B 42 2043 107 HOH HOH . J 4 HOH B 43 2044 108 HOH HOH . J 4 HOH B 44 2045 109 HOH HOH . J 4 HOH B 45 2046 110 HOH HOH . J 4 HOH B 46 2047 111 HOH HOH . J 4 HOH B 47 2048 121 HOH HOH . J 4 HOH B 48 2049 123 HOH HOH . J 4 HOH B 49 2050 126 HOH HOH . J 4 HOH B 50 2051 127 HOH HOH . J 4 HOH B 51 2052 129 HOH HOH . J 4 HOH B 52 2053 131 HOH HOH . J 4 HOH B 53 2054 132 HOH HOH . J 4 HOH B 54 2055 136 HOH HOH . J 4 HOH B 55 2056 137 HOH HOH . J 4 HOH B 56 2057 140 HOH HOH . J 4 HOH B 57 2058 141 HOH HOH . J 4 HOH B 58 2059 143 HOH HOH . J 4 HOH B 59 2060 144 HOH HOH . J 4 HOH B 60 2061 145 HOH HOH . J 4 HOH B 61 2062 146 HOH HOH . J 4 HOH B 62 2063 147 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 2 _atom_site.Cartn_x 4.23 _atom_site.Cartn_y 1.361 _atom_site.Cartn_z 4.695 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 18.66 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NI _atom_site.auth_comp_id NI _atom_site.auth_seq_id 1002 _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 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 271 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 1 #