data_5YXH
#
_model_server_result.job_id            4-6x2It-e5-CsH3Iz6myjA 
_model_server_result.datetime_utc      '2024-11-27 23:21:45' 
_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          5yxh 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":202}' 
#
_entry.id    5YXH 
#
_exptl.entry_id    5YXH 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              24.305 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'MAGNESIUM ION' 
_entity.pdbx_number_of_molecules    4 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         110.53 
_cell.angle_beta          90.03 
_cell.angle_gamma         108.16 
_cell.entry_id            5YXH 
_cell.length_a            50.166 
_cell.length_b            58.963 
_cell.length_c            64.345 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5YXH 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
? monomeric 1 author_defined_assembly 3 
? monomeric 1 author_defined_assembly 4 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,E,F,M 1 1 
B,G,H,N 2 1 
C,I,J,O 3 1 
D,K,L,P 4 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 OG SER 20 A SER 20 1_555 F MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.178 ? 
metalc ? metalc2 E O1B GDP . A GDP 201 1_555 F MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.179 ? 
metalc ? metalc3 F MG MG . A MG 202 1_555 M O HOH . A HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.171 ? 
metalc ? metalc4 F MG MG . A MG 202 1_555 M O HOH . A HOH 310 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.171 ? 
metalc ? metalc5 F MG MG . A MG 202 1_555 M O HOH . A HOH 313 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.171 ? 
metalc ? metalc6 F MG MG . A MG 202 1_555 M O HOH . A HOH 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.183 ? 
metalc ? metalc7 B OG SER 20 B SER 20 1_555 H MG MG . B MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.177 ? 
metalc ? metalc8 G O3B GDP . B GDP 201 1_555 H MG MG . B MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.18 ? 
metalc ? metalc9 H MG MG . B MG 202 1_555 N O HOH . B HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.164 ? 
metalc ? metalc10 H MG MG . B MG 202 1_555 N O HOH . B HOH 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.171 ? 
metalc ? metalc11 H MG MG . B MG 202 1_555 N O HOH . B HOH 310 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.178 ? 
metalc ? metalc12 H MG MG . B MG 202 1_555 N O HOH . B HOH 323 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.182 ? 
metalc ? metalc13 C OG SER 20 C SER 20 1_555 J MG MG . C MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.169 ? 
metalc ? metalc14 I O1B GDP . C GDP 201 1_555 J MG MG . C MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.177 ? 
metalc ? metalc15 J MG MG . C MG 202 1_555 O O HOH . C HOH 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.173 ? 
metalc ? metalc16 J MG MG . C MG 202 1_555 O O HOH . C HOH 308 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.169 ? 
metalc ? metalc17 J MG MG . C MG 202 1_555 O O HOH . C HOH 312 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.17 ? 
metalc ? metalc18 J MG MG . C MG 202 1_555 O O HOH . C HOH 322 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.182 ? 
metalc ? metalc19 D OG SER 20 D SER 20 1_555 L MG MG . D MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.17 ? 
metalc ? metalc20 K O3B GDP . D GDP 201 1_555 L MG MG . D MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.171 ? 
metalc ? metalc21 L MG MG . D MG 202 1_555 P O HOH . D HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.174 ? 
metalc ? metalc22 L MG MG . D MG 202 1_555 P O HOH . D HOH 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.173 ? 
metalc ? metalc23 L MG MG . D MG 202 1_555 P O HOH . D HOH 311 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.173 ? 
metalc ? metalc24 L MG MG . D MG 202 1_555 P O HOH . D HOH 330 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.179 ? 
#
_chem_comp.formula           'Mg 2' 
_chem_comp.formula_weight    24.305 
_chem_comp.id                MG 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'MAGNESIUM ION' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
_atom_sites.entry_id                     5YXH 
_atom_sites.fract_transf_matrix[1][1]    0.019934 
_atom_sites.fract_transf_matrix[1][2]    0.006538 
_atom_sites.fract_transf_matrix[1][3]    0.002608 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.017849 
_atom_sites.fract_transf_matrix[2][3]    0.007093 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.016723 
_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 GDP A 1 201 1 GDP GDP . 
F 3 MG A 1 202 1 MG MG . 
G 2 GDP B 1 201 2 GDP GDP . 
H 3 MG B 1 202 2 MG MG . 
I 2 GDP C 1 201 3 GDP GDP . 
J 3 MG C 1 202 3 MG MG . 
K 2 GDP D 1 201 4 GDP GDP . 
L 3 MG D 1 202 4 MG MG . 
M 4 HOH A 1 301 2 HOH HOH . 
M 4 HOH A 2 302 65 HOH HOH . 
M 4 HOH A 3 303 121 HOH HOH . 
M 4 HOH A 4 304 62 HOH HOH . 
M 4 HOH A 5 305 67 HOH HOH . 
M 4 HOH A 6 306 44 HOH HOH . 
M 4 HOH A 7 307 86 HOH HOH . 
M 4 HOH A 8 308 17 HOH HOH . 
M 4 HOH A 9 309 19 HOH HOH . 
M 4 HOH A 10 310 4 HOH HOH . 
M 4 HOH A 11 311 47 HOH HOH . 
M 4 HOH A 12 312 41 HOH HOH . 
M 4 HOH A 13 313 3 HOH HOH . 
M 4 HOH A 14 314 54 HOH HOH . 
M 4 HOH A 15 315 63 HOH HOH . 
M 4 HOH A 16 316 32 HOH HOH . 
M 4 HOH A 17 317 1 HOH HOH . 
M 4 HOH A 18 318 85 HOH HOH . 
M 4 HOH A 19 319 23 HOH HOH . 
M 4 HOH A 20 320 28 HOH HOH . 
M 4 HOH A 21 321 48 HOH HOH . 
M 4 HOH A 22 322 120 HOH HOH . 
M 4 HOH A 23 323 42 HOH HOH . 
M 4 HOH A 24 324 68 HOH HOH . 
M 4 HOH A 25 325 139 HOH HOH . 
M 4 HOH A 26 326 43 HOH HOH . 
M 4 HOH A 27 327 35 HOH HOH . 
M 4 HOH A 28 328 61 HOH HOH . 
M 4 HOH A 29 329 46 HOH HOH . 
M 4 HOH A 30 330 140 HOH HOH . 
M 4 HOH A 31 331 56 HOH HOH . 
M 4 HOH A 32 332 69 HOH HOH . 
M 4 HOH A 33 333 141 HOH HOH . 
N 4 HOH B 1 301 145 HOH HOH . 
N 4 HOH B 2 302 6 HOH HOH . 
N 4 HOH B 3 303 8 HOH HOH . 
N 4 HOH B 4 304 144 HOH HOH . 
N 4 HOH B 5 305 39 HOH HOH . 
N 4 HOH B 6 306 87 HOH HOH . 
N 4 HOH B 7 307 80 HOH HOH . 
N 4 HOH B 8 308 79 HOH HOH . 
N 4 HOH B 9 309 29 HOH HOH . 
N 4 HOH B 10 310 7 HOH HOH . 
N 4 HOH B 11 311 96 HOH HOH . 
N 4 HOH B 12 312 83 HOH HOH . 
N 4 HOH B 13 313 33 HOH HOH . 
N 4 HOH B 14 314 97 HOH HOH . 
N 4 HOH B 15 315 51 HOH HOH . 
N 4 HOH B 16 316 88 HOH HOH . 
N 4 HOH B 17 317 66 HOH HOH . 
N 4 HOH B 18 318 50 HOH HOH . 
N 4 HOH B 19 319 124 HOH HOH . 
N 4 HOH B 20 320 26 HOH HOH . 
N 4 HOH B 21 321 77 HOH HOH . 
N 4 HOH B 22 322 30 HOH HOH . 
N 4 HOH B 23 323 5 HOH HOH . 
N 4 HOH B 24 324 81 HOH HOH . 
N 4 HOH B 25 325 82 HOH HOH . 
N 4 HOH B 26 326 53 HOH HOH . 
N 4 HOH B 27 327 143 HOH HOH . 
N 4 HOH B 28 328 49 HOH HOH . 
N 4 HOH B 29 329 45 HOH HOH . 
N 4 HOH B 30 330 138 HOH HOH . 
N 4 HOH B 31 331 125 HOH HOH . 
N 4 HOH B 32 332 98 HOH HOH . 
N 4 HOH B 33 333 76 HOH HOH . 
N 4 HOH B 34 334 60 HOH HOH . 
N 4 HOH B 35 335 75 HOH HOH . 
N 4 HOH B 36 336 116 HOH HOH . 
O 4 HOH C 1 301 78 HOH HOH . 
O 4 HOH C 2 302 20 HOH HOH . 
O 4 HOH C 3 303 10 HOH HOH . 
O 4 HOH C 4 304 126 HOH HOH . 
O 4 HOH C 5 305 130 HOH HOH . 
O 4 HOH C 6 306 22 HOH HOH . 
O 4 HOH C 7 307 110 HOH HOH . 
O 4 HOH C 8 308 12 HOH HOH . 
O 4 HOH C 9 309 127 HOH HOH . 
O 4 HOH C 10 310 70 HOH HOH . 
O 4 HOH C 11 311 100 HOH HOH . 
O 4 HOH C 12 312 11 HOH HOH . 
O 4 HOH C 13 313 40 HOH HOH . 
O 4 HOH C 14 314 131 HOH HOH . 
O 4 HOH C 15 315 111 HOH HOH . 
O 4 HOH C 16 316 24 HOH HOH . 
O 4 HOH C 17 317 132 HOH HOH . 
O 4 HOH C 18 318 31 HOH HOH . 
O 4 HOH C 19 319 147 HOH HOH . 
O 4 HOH C 20 320 118 HOH HOH . 
O 4 HOH C 21 321 101 HOH HOH . 
O 4 HOH C 22 322 9 HOH HOH . 
O 4 HOH C 23 323 136 HOH HOH . 
O 4 HOH C 24 324 117 HOH HOH . 
O 4 HOH C 25 325 95 HOH HOH . 
O 4 HOH C 26 326 52 HOH HOH . 
O 4 HOH C 27 327 38 HOH HOH . 
O 4 HOH C 28 328 34 HOH HOH . 
O 4 HOH C 29 329 94 HOH HOH . 
O 4 HOH C 30 330 103 HOH HOH . 
O 4 HOH C 31 331 102 HOH HOH . 
O 4 HOH C 32 332 72 HOH HOH . 
O 4 HOH C 33 333 109 HOH HOH . 
O 4 HOH C 34 334 99 HOH HOH . 
O 4 HOH C 35 335 74 HOH HOH . 
O 4 HOH C 36 336 73 HOH HOH . 
O 4 HOH C 37 337 129 HOH HOH . 
O 4 HOH C 38 338 128 HOH HOH . 
P 4 HOH D 1 301 13 HOH HOH . 
P 4 HOH D 2 302 142 HOH HOH . 
P 4 HOH D 3 303 104 HOH HOH . 
P 4 HOH D 4 304 92 HOH HOH . 
P 4 HOH D 5 305 15 HOH HOH . 
P 4 HOH D 6 306 119 HOH HOH . 
P 4 HOH D 7 307 115 HOH HOH . 
P 4 HOH D 8 308 27 HOH HOH . 
P 4 HOH D 9 309 89 HOH HOH . 
P 4 HOH D 10 310 21 HOH HOH . 
P 4 HOH D 11 311 14 HOH HOH . 
P 4 HOH D 12 312 113 HOH HOH . 
P 4 HOH D 13 313 106 HOH HOH . 
P 4 HOH D 14 314 55 HOH HOH . 
P 4 HOH D 15 315 137 HOH HOH . 
P 4 HOH D 16 316 25 HOH HOH . 
P 4 HOH D 17 317 18 HOH HOH . 
P 4 HOH D 18 318 84 HOH HOH . 
P 4 HOH D 19 319 93 HOH HOH . 
P 4 HOH D 20 320 64 HOH HOH . 
P 4 HOH D 21 321 36 HOH HOH . 
P 4 HOH D 22 322 105 HOH HOH . 
P 4 HOH D 23 323 58 HOH HOH . 
P 4 HOH D 24 324 71 HOH HOH . 
P 4 HOH D 25 325 108 HOH HOH . 
P 4 HOH D 26 326 59 HOH HOH . 
P 4 HOH D 27 327 114 HOH HOH . 
P 4 HOH D 28 328 107 HOH HOH . 
P 4 HOH D 29 329 122 HOH HOH . 
P 4 HOH D 30 330 16 HOH HOH . 
P 4 HOH D 31 331 112 HOH HOH . 
P 4 HOH D 32 332 57 HOH HOH . 
P 4 HOH D 33 333 146 HOH HOH . 
P 4 HOH D 34 334 123 HOH HOH . 
P 4 HOH D 35 335 91 HOH HOH . 
P 4 HOH D 36 336 134 HOH HOH . 
P 4 HOH D 37 337 90 HOH HOH . 
P 4 HOH D 38 338 135 HOH HOH . 
P 4 HOH D 39 339 37 HOH HOH . 
P 4 HOH D 40 340 133 HOH HOH . 
#
_atom_site.group_PDB             HETATM 
_atom_site.id                    1 
_atom_site.type_symbol           MG 
_atom_site.label_atom_id         MG 
_atom_site.label_comp_id         MG 
_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       3 
_atom_site.Cartn_x               -55.012 
_atom_site.Cartn_y               3.107 
_atom_site.Cartn_z               -13.183 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        39.39 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          MG 
_atom_site.auth_comp_id          MG 
_atom_site.auth_seq_id           202 
_atom_site.auth_asym_id          D 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           307 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           1 
#