data_2D3P
#
_model_server_result.job_id            w_kZaXbyhajFBmhfVGWcgw 
_model_server_result.datetime_utc      '2024-11-05 00:53:43' 
_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          2d3p 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":242}' 
#
_entry.id    2D3P 
#
_exptl.entry_id    2D3P 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              54.938 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'MANGANESE (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         90 
_cell.angle_beta          90 
_cell.angle_gamma         90 
_cell.entry_id            2D3P 
_cell.length_a            71.367 
_cell.length_b            106.929 
_cell.length_c            119.625 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2D3P 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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,K,L,M,N,O,P 
_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 F N N 
? 3 H N N 
? 3 J N N 
? 3 L 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 A OE2 GLU 8 A GLU 8 1_555 F MN MN . A MN 238 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.987 ? 
metalc ? metalc2 A OD1 ASP 10 A ASP 10 1_555 E CA CA . A CA 237 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.411 ? 
metalc ? metalc3 A OD2 ASP 10 A ASP 10 1_555 E CA CA . A CA 237 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.636 ? 
metalc ? metalc4 A OD2 ASP 10 A ASP 10 1_555 F MN MN . A MN 238 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.243 ? 
metalc ? metalc5 A O TYR 12 A TYR 12 1_555 E CA CA . A CA 237 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? 
metalc ? metalc6 A OD1 ASN 14 A ASN 14 1_555 E CA CA . A CA 237 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? 
metalc ? metalc7 A OD2 ASP 19 A ASP 19 1_555 E CA CA . A CA 237 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.377 ? 
metalc ? metalc8 A OD1 ASP 19 A ASP 19 1_555 F MN MN . A MN 238 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.892 ? 
metalc ? metalc9 A NE2 HIS 24 A HIS 24 1_555 F MN MN . A MN 238 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.243 ? 
metalc ? metalc10 B OE2 GLU 8 B GLU 8 1_555 H MN MN . B MN 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.195 ? 
metalc ? metalc11 B OD1 ASP 10 B ASP 10 1_555 G CA CA . B CA 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? 
metalc ? metalc12 B OD2 ASP 10 B ASP 10 1_555 G CA CA . B CA 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.654 ? 
metalc ? metalc13 B OD2 ASP 10 B ASP 10 1_555 H MN MN . B MN 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.116 ? 
metalc ? metalc14 B O TYR 12 B TYR 12 1_555 G CA CA . B CA 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.343 ? 
metalc ? metalc15 B OD1 ASN 14 B ASN 14 1_555 G CA CA . B CA 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.592 ? 
metalc ? metalc16 B OD2 ASP 19 B ASP 19 1_555 G CA CA . B CA 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.548 ? 
metalc ? metalc17 B OD1 ASP 19 B ASP 19 1_555 H MN MN . B MN 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.357 ? 
metalc ? metalc18 B NE2 HIS 24 B HIS 24 1_555 H MN MN . B MN 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.23 ? 
metalc ? metalc19 C OE2 GLU 8 C GLU 8 1_555 J MN MN . C MN 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? 
metalc ? metalc20 C OD1 ASP 10 C ASP 10 1_555 I CA CA . C CA 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.404 ? 
metalc ? metalc21 C OD2 ASP 10 C ASP 10 1_555 I CA CA . C CA 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.676 ? 
metalc ? metalc22 C OD2 ASP 10 C ASP 10 1_555 J MN MN . C MN 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? 
metalc ? metalc23 C O TYR 12 C TYR 12 1_555 I CA CA . C CA 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.477 ? 
metalc ? metalc24 C OD1 ASN 14 C ASN 14 1_555 I CA CA . C CA 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? 
metalc ? metalc25 C OD2 ASP 19 C ASP 19 1_555 I CA CA . C CA 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.568 ? 
metalc ? metalc26 C OD1 ASP 19 C ASP 19 1_555 J MN MN . C MN 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.157 ? 
metalc ? metalc27 C NE2 HIS 24 C HIS 24 1_555 J MN MN . C MN 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? 
metalc ? metalc28 I CA CA . C CA 241 1_555 O O HOH . C HOH 244 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.899 ? 
metalc ? metalc29 D OE2 GLU 8 D GLU 8 1_555 L MN MN . D MN 244 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.399 ? 
metalc ? metalc30 D OD2 ASP 10 D ASP 10 1_555 K CA CA . D CA 243 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.68 ? 
metalc ? metalc31 D OD1 ASP 10 D ASP 10 1_555 K CA CA . D CA 243 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.432 ? 
metalc ? metalc32 D OD2 ASP 10 D ASP 10 1_555 L MN MN . D MN 244 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? 
metalc ? metalc33 D O TYR 12 D TYR 12 1_555 K CA CA . D CA 243 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.364 ? 
metalc ? metalc34 D OD1 ASN 14 D ASN 14 1_555 K CA CA . D CA 243 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? 
metalc ? metalc35 D OD2 ASP 19 D ASP 19 1_555 K CA CA . D CA 243 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.454 ? 
metalc ? metalc36 D OD1 ASP 19 D ASP 19 1_555 L MN MN . D MN 244 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.415 ? 
metalc ? metalc37 D NE2 HIS 24 D HIS 24 1_555 L MN MN . D MN 244 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.246 ? 
#
_chem_comp.formula           'Mn 2' 
_chem_comp.formula_weight    54.938 
_chem_comp.id                MN 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'MANGANESE (II) ION' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
_atom_sites.entry_id                     2D3P 
_atom_sites.fract_transf_matrix[1][1]    0.014012 
_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]    0.009352 
_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]    0.008359 
_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 2 CA A 1 237 237 CA CA . 
F 3 MN A 1 238 238 MN MN . 
G 2 CA B 1 239 239 CA CA . 
H 3 MN B 1 240 240 MN MN . 
I 2 CA C 1 241 241 CA CA . 
J 3 MN C 1 242 242 MN MN . 
K 2 CA D 1 243 243 CA CA . 
L 3 MN D 1 244 244 MN MN . 
M 4 HOH A 1 239 8 HOH HOH . 
M 4 HOH A 2 240 11 HOH HOH . 
M 4 HOH A 3 241 15 HOH HOH . 
M 4 HOH A 4 242 21 HOH HOH . 
M 4 HOH A 5 243 51 HOH HOH . 
M 4 HOH A 6 244 52 HOH HOH . 
M 4 HOH A 7 245 53 HOH HOH . 
M 4 HOH A 8 246 54 HOH HOH . 
M 4 HOH A 9 247 63 HOH HOH . 
M 4 HOH A 10 248 64 HOH HOH . 
M 4 HOH A 11 249 65 HOH HOH . 
M 4 HOH A 12 250 66 HOH HOH . 
M 4 HOH A 13 251 68 HOH HOH . 
M 4 HOH A 14 252 69 HOH HOH . 
M 4 HOH A 15 253 70 HOH HOH . 
M 4 HOH A 16 254 75 HOH HOH . 
M 4 HOH A 17 255 76 HOH HOH . 
M 4 HOH A 18 256 93 HOH HOH . 
M 4 HOH A 19 257 94 HOH HOH . 
M 4 HOH A 20 258 95 HOH HOH . 
M 4 HOH A 21 259 96 HOH HOH . 
M 4 HOH A 22 260 97 HOH HOH . 
M 4 HOH A 23 261 106 HOH HOH . 
M 4 HOH A 24 262 107 HOH HOH . 
M 4 HOH A 25 263 108 HOH HOH . 
M 4 HOH A 26 264 109 HOH HOH . 
M 4 HOH A 27 265 110 HOH HOH . 
M 4 HOH A 28 266 132 HOH HOH . 
M 4 HOH A 29 267 133 HOH HOH . 
M 4 HOH A 30 268 134 HOH HOH . 
M 4 HOH A 31 269 135 HOH HOH . 
M 4 HOH A 32 270 136 HOH HOH . 
M 4 HOH A 33 271 150 HOH HOH . 
M 4 HOH A 34 272 152 HOH HOH . 
M 4 HOH A 35 273 153 HOH HOH . 
N 4 HOH B 1 241 1 HOH HOH . 
N 4 HOH B 2 242 3 HOH HOH . 
N 4 HOH B 3 243 4 HOH HOH . 
N 4 HOH B 4 244 6 HOH HOH . 
N 4 HOH B 5 245 12 HOH HOH . 
N 4 HOH B 6 246 25 HOH HOH . 
N 4 HOH B 7 247 27 HOH HOH . 
N 4 HOH B 8 248 29 HOH HOH . 
N 4 HOH B 9 249 30 HOH HOH . 
N 4 HOH B 10 250 33 HOH HOH . 
N 4 HOH B 11 251 34 HOH HOH . 
N 4 HOH B 12 252 37 HOH HOH . 
N 4 HOH B 13 253 67 HOH HOH . 
N 4 HOH B 14 254 71 HOH HOH . 
N 4 HOH B 15 255 72 HOH HOH . 
N 4 HOH B 16 256 73 HOH HOH . 
N 4 HOH B 17 257 74 HOH HOH . 
N 4 HOH B 18 258 77 HOH HOH . 
N 4 HOH B 19 259 78 HOH HOH . 
N 4 HOH B 20 260 79 HOH HOH . 
N 4 HOH B 21 261 80 HOH HOH . 
N 4 HOH B 22 262 81 HOH HOH . 
N 4 HOH B 23 263 82 HOH HOH . 
N 4 HOH B 24 264 83 HOH HOH . 
N 4 HOH B 25 265 85 HOH HOH . 
N 4 HOH B 26 266 86 HOH HOH . 
N 4 HOH B 27 267 98 HOH HOH . 
N 4 HOH B 28 268 100 HOH HOH . 
N 4 HOH B 29 269 116 HOH HOH . 
N 4 HOH B 30 270 117 HOH HOH . 
N 4 HOH B 31 271 118 HOH HOH . 
N 4 HOH B 32 272 119 HOH HOH . 
N 4 HOH B 33 273 120 HOH HOH . 
N 4 HOH B 34 274 121 HOH HOH . 
N 4 HOH B 35 275 137 HOH HOH . 
N 4 HOH B 36 276 138 HOH HOH . 
N 4 HOH B 37 277 139 HOH HOH . 
N 4 HOH B 38 278 140 HOH HOH . 
N 4 HOH B 39 279 143 HOH HOH . 
N 4 HOH B 40 280 144 HOH HOH . 
N 4 HOH B 41 281 146 HOH HOH . 
N 4 HOH B 42 282 154 HOH HOH . 
N 4 HOH B 43 283 156 HOH HOH . 
N 4 HOH B 44 284 157 HOH HOH . 
N 4 HOH B 45 285 158 HOH HOH . 
N 4 HOH B 46 286 159 HOH HOH . 
N 4 HOH B 47 287 172 HOH HOH . 
N 4 HOH B 48 288 173 HOH HOH . 
N 4 HOH B 49 289 174 HOH HOH . 
N 4 HOH B 50 290 175 HOH HOH . 
O 4 HOH C 1 243 9 HOH HOH . 
O 4 HOH C 2 244 14 HOH HOH . 
O 4 HOH C 3 245 17 HOH HOH . 
O 4 HOH C 4 246 24 HOH HOH . 
O 4 HOH C 5 247 31 HOH HOH . 
O 4 HOH C 6 248 32 HOH HOH . 
O 4 HOH C 7 249 38 HOH HOH . 
O 4 HOH C 8 250 41 HOH HOH . 
O 4 HOH C 9 251 42 HOH HOH . 
O 4 HOH C 10 252 59 HOH HOH . 
O 4 HOH C 11 253 84 HOH HOH . 
O 4 HOH C 12 254 87 HOH HOH . 
O 4 HOH C 13 255 88 HOH HOH . 
O 4 HOH C 14 256 89 HOH HOH . 
O 4 HOH C 15 257 90 HOH HOH . 
O 4 HOH C 16 258 91 HOH HOH . 
O 4 HOH C 17 259 92 HOH HOH . 
O 4 HOH C 18 260 99 HOH HOH . 
O 4 HOH C 19 261 101 HOH HOH . 
O 4 HOH C 20 262 102 HOH HOH . 
O 4 HOH C 21 263 122 HOH HOH . 
O 4 HOH C 22 264 123 HOH HOH . 
O 4 HOH C 23 265 124 HOH HOH . 
O 4 HOH C 24 266 126 HOH HOH . 
O 4 HOH C 25 267 127 HOH HOH . 
O 4 HOH C 26 268 141 HOH HOH . 
O 4 HOH C 27 269 145 HOH HOH . 
O 4 HOH C 28 270 147 HOH HOH . 
O 4 HOH C 29 271 148 HOH HOH . 
O 4 HOH C 30 272 160 HOH HOH . 
O 4 HOH C 31 273 176 HOH HOH . 
O 4 HOH C 32 274 177 HOH HOH . 
P 4 HOH D 1 245 10 HOH HOH . 
P 4 HOH D 2 246 13 HOH HOH . 
P 4 HOH D 3 247 18 HOH HOH . 
P 4 HOH D 4 248 19 HOH HOH . 
P 4 HOH D 5 249 20 HOH HOH . 
P 4 HOH D 6 250 23 HOH HOH . 
P 4 HOH D 7 251 36 HOH HOH . 
P 4 HOH D 8 252 40 HOH HOH . 
P 4 HOH D 9 253 56 HOH HOH . 
P 4 HOH D 10 254 57 HOH HOH . 
P 4 HOH D 11 255 58 HOH HOH . 
P 4 HOH D 12 256 60 HOH HOH . 
P 4 HOH D 13 257 103 HOH HOH . 
P 4 HOH D 14 258 104 HOH HOH . 
P 4 HOH D 15 259 105 HOH HOH . 
P 4 HOH D 16 260 129 HOH HOH . 
P 4 HOH D 17 261 130 HOH HOH . 
P 4 HOH D 18 262 131 HOH HOH . 
P 4 HOH D 19 263 149 HOH HOH . 
P 4 HOH D 20 264 161 HOH HOH . 
P 4 HOH D 21 265 162 HOH HOH . 
P 4 HOH D 22 266 178 HOH HOH . 
P 4 HOH D 23 267 179 HOH HOH . 
#
_atom_site.group_PDB             HETATM 
_atom_site.id                    1 
_atom_site.type_symbol           MN 
_atom_site.label_atom_id         MN 
_atom_site.label_comp_id         MN 
_atom_site.label_seq_id          . 
_atom_site.label_alt_id          . 
_atom_site.pdbx_PDB_ins_code     . 
_atom_site.label_asym_id         J 
_atom_site.label_entity_id       3 
_atom_site.Cartn_x               -34.548 
_atom_site.Cartn_y               -14.18 
_atom_site.Cartn_z               27.641 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        21.3 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          MN 
_atom_site.auth_comp_id          MN 
_atom_site.auth_seq_id           242 
_atom_site.auth_asym_id          C 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              18 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    24 
_model_server_stats.query_time_ms           277 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           1 
#