data_5YTY
#
_model_server_result.job_id            CmAI2PiBnoDd3ox7eVw_oQ 
_model_server_result.datetime_utc      '2025-02-27 01:48:33' 
_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          5yty 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":102}' 
#
_entry.id    5YTY 
#
_exptl.entry_id    5YTY 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              24.305 
_entity.id                          4 
_entity.src_method                  nat 
_entity.type                        non-polymer 
_entity.pdbx_description            'MAGNESIUM 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         120 
_cell.entry_id            5YTY 
_cell.length_a            46.362 
_cell.length_b            46.362 
_cell.length_c            48.005 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5YTY 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        151 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 31 1 2' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_pdbx_struct_assembly.details               author_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 
_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
? 4 E N N 
? 4 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 C SG N2C 3 D N2C 3 1_555 C SG NCY 7 D NCY 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.899 ? 
disulf ? disulf2 D SG N2C 3 F N2C 3 1_555 D SG NCY 7 F NCY 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.906 ? 
covale ? covale1 C C DSN 1 D DSN 1 1_555 C N ALA 2 D ALA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale2 C OG DSN 1 D DSN 1 1_555 C C MVA 8 D MVA 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.374 ? 
covale ? covale3 C N DSN 1 D DSN 1 1_555 H C QUI . D QUI 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.356 ? 
covale ? covale4 C C ALA 2 D ALA 2 1_555 C N N2C 3 D N2C 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.365 ? 
covale ? covale5 C C N2C 3 D N2C 3 1_555 C N MVA 4 D MVA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
covale ? covale6 C CB N2C 3 D N2C 3 1_555 C SG NCY 7 D NCY 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.829 ? 
covale ? covale7 C C MVA 4 D MVA 4 1_555 C OG DSN 5 D DSN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.374 ? 
covale ? covale8 C C DSN 5 D DSN 5 1_555 C N ALA 6 D ALA 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale9 C N DSN 5 D DSN 5 1_555 I C QUI . D QUI 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale10 C C ALA 6 D ALA 6 1_555 C N NCY 7 D NCY 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? 
covale ? covale11 C C NCY 7 D NCY 7 1_555 C N MVA 8 D MVA 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? 
covale ? covale12 D C DSN 1 F DSN 1 1_555 D N ALA 2 F ALA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? 
covale ? covale13 D OG DSN 1 F DSN 1 1_555 D C MVA 8 F MVA 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.371 ? 
covale ? covale14 D N DSN 1 F DSN 1 1_555 J C QUI . F QUI 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? 
covale ? covale15 D C ALA 2 F ALA 2 1_555 D N N2C 3 F N2C 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.366 ? 
covale ? covale16 D C N2C 3 F N2C 3 1_555 D N MVA 4 F MVA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? 
covale ? covale17 D CB N2C 3 F N2C 3 1_555 D SG NCY 7 F NCY 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.859 ? 
covale ? covale18 D C MVA 4 F MVA 4 1_555 D OG DSN 5 F DSN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.374 ? 
covale ? covale19 D C DSN 5 F DSN 5 1_555 D N ALA 6 F ALA 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? 
covale ? covale20 D N DSN 5 F DSN 5 1_555 K C QUI . F QUI 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.349 ? 
covale ? covale21 D C ALA 6 F ALA 6 1_555 D N NCY 7 F NCY 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.344 ? 
covale ? covale22 D C NCY 7 F NCY 7 1_555 D N MVA 8 F MVA 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
metalc ? metalc1 A N7 DG 3 A DG 3 1_555 F MN MN . B MN 101 6_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.163 ? 
metalc ? metalc2 E MG MG . A MG 101 1_555 L O HOH . A HOH 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.762 ? 
metalc ? metalc3 L O HOH . A HOH 212 6_555 F MN MN . B MN 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? 
metalc ? metalc4 L O HOH . A HOH 217 6_555 F MN MN . B MN 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.276 ? 
metalc ? metalc5 L O HOH . A HOH 219 6_555 F MN MN . B MN 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.204 ? 
metalc ? metalc6 B N7 DG 3 B DG 3 1_555 F MN MN . B MN 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.2 ? 
metalc ? metalc7 F MN MN . B MN 101 1_555 M O HOH . B HOH 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.099 ? 
metalc ? metalc8 G MG MG . B MG 102 1_555 M O HOH . B HOH 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.237 ? 
metalc ? metalc9 G MG MG . B MG 102 1_555 M O HOH . B HOH 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.748 ? 
hydrog WATSON-CRICK hydrog1 A N1 DA 1 A DA 1 1_555 B N3 DT 7 B DT 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog2 A N6 DA 1 A DA 1 1_555 B O4 DT 7 B DT 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog3 A N3 DC 2 A DC 2 1_555 B N1 DG 6 B DG 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog4 A N4 DC 2 A DC 2 1_555 B O6 DG 6 B DG 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog5 A O2 DC 2 A DC 2 1_555 B N2 DG 6 B DG 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog6 A N1 DG 3 A DG 3 1_555 B N3 DC 5 B DC 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog7 A N2 DG 3 A DG 3 1_555 B O2 DC 5 B DC 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog8 A O6 DG 3 A DG 3 1_555 B N4 DC 5 B DC 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog9 A N1 DA 4 A DA 4 1_555 B N3 DT 4 B DT 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog10 A N6 DA 4 A DA 4 1_555 B O4 DT 4 B DT 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog11 A N3 DC 5 A DC 5 1_555 B N1 DG 3 B DG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog12 A N4 DC 5 A DC 5 1_555 B O6 DG 3 B DG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog13 A O2 DC 5 A DC 5 1_555 B N2 DG 3 B DG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog14 A N1 DG 6 A DG 6 1_555 B N3 DC 2 B DC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog15 A N2 DG 6 A DG 6 1_555 B O2 DC 2 B DC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog16 A O6 DG 6 A DG 6 1_555 B N4 DC 2 B DC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog17 A N3 DT 7 A DT 7 1_555 B N1 DA 1 B DA 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog18 A O4 DT 7 A DT 7 1_555 B N6 DA 1 B DA 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
#
_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                     5YTY 
_atom_sites.fract_transf_matrix[1][1]    0.021569 
_atom_sites.fract_transf_matrix[1][2]    0.012453 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.024906 
_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]    0.020831 
_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 4 MG A 1 101 12 MG MG . 
F 5 MN B 1 101 12 MN MN . 
G 4 MG B 1 102 11 MG MG . 
H 6 QUI D 1 101 10 QUI QUI . 
I 6 QUI D 1 102 11 QUI QUI . 
J 6 QUI F 1 101 10 QUI QUI . 
K 6 QUI F 1 102 11 QUI QUI . 
L 7 HOH A 1 201 62 HOH HOH . 
L 7 HOH A 2 202 21 HOH HOH . 
L 7 HOH A 3 203 50 HOH HOH . 
L 7 HOH A 4 204 55 HOH HOH . 
L 7 HOH A 5 205 38 HOH HOH . 
L 7 HOH A 6 206 6 HOH HOH . 
L 7 HOH A 7 207 7 HOH HOH . 
L 7 HOH A 8 208 16 HOH HOH . 
L 7 HOH A 9 209 49 HOH HOH . 
L 7 HOH A 10 210 1 HOH HOH . 
L 7 HOH A 11 211 22 HOH HOH . 
L 7 HOH A 12 212 15 HOH HOH . 
L 7 HOH A 13 213 2 HOH HOH . 
L 7 HOH A 14 214 20 HOH HOH . 
L 7 HOH A 15 215 53 HOH HOH . 
L 7 HOH A 16 216 43 HOH HOH . 
L 7 HOH A 17 217 19 HOH HOH . 
L 7 HOH A 18 218 24 HOH HOH . 
L 7 HOH A 19 219 17 HOH HOH . 
L 7 HOH A 20 220 39 HOH HOH . 
L 7 HOH A 21 221 57 HOH HOH . 
L 7 HOH A 22 222 61 HOH HOH . 
L 7 HOH A 23 223 65 HOH HOH . 
L 7 HOH A 24 224 12 HOH HOH . 
L 7 HOH A 25 225 36 HOH HOH . 
L 7 HOH A 26 226 51 HOH HOH . 
M 7 HOH B 1 201 34 HOH HOH . 
M 7 HOH B 2 202 52 HOH HOH . 
M 7 HOH B 3 203 64 HOH HOH . 
M 7 HOH B 4 204 4 HOH HOH . 
M 7 HOH B 5 205 8 HOH HOH . 
M 7 HOH B 6 206 13 HOH HOH . 
M 7 HOH B 7 207 28 HOH HOH . 
M 7 HOH B 8 208 27 HOH HOH . 
M 7 HOH B 9 209 14 HOH HOH . 
M 7 HOH B 10 210 42 HOH HOH . 
M 7 HOH B 11 211 18 HOH HOH . 
M 7 HOH B 12 212 9 HOH HOH . 
M 7 HOH B 13 213 26 HOH HOH . 
M 7 HOH B 14 214 41 HOH HOH . 
M 7 HOH B 15 215 32 HOH HOH . 
M 7 HOH B 16 216 46 HOH HOH . 
M 7 HOH B 17 217 33 HOH HOH . 
M 7 HOH B 18 218 54 HOH HOH . 
M 7 HOH B 19 219 40 HOH HOH . 
M 7 HOH B 20 220 58 HOH HOH . 
M 7 HOH B 21 221 44 HOH HOH . 
M 7 HOH B 22 222 63 HOH HOH . 
M 7 HOH B 23 223 5 HOH HOH . 
M 7 HOH B 24 224 56 HOH HOH . 
M 7 HOH B 25 225 37 HOH HOH . 
M 7 HOH B 26 226 60 HOH HOH . 
M 7 HOH B 27 227 35 HOH HOH . 
N 7 HOH D 1 201 10 HOH HOH . 
N 7 HOH D 2 202 11 HOH HOH . 
N 7 HOH D 3 203 31 HOH HOH . 
N 7 HOH D 4 204 48 HOH HOH . 
N 7 HOH D 5 205 47 HOH HOH . 
N 7 HOH D 6 206 59 HOH HOH . 
O 7 HOH F 1 201 30 HOH HOH . 
O 7 HOH F 2 202 3 HOH HOH . 
O 7 HOH F 3 203 29 HOH HOH . 
O 7 HOH F 4 204 23 HOH HOH . 
O 7 HOH F 5 205 25 HOH HOH . 
O 7 HOH F 6 206 45 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         G 
_atom_site.label_entity_id       4 
_atom_site.Cartn_x               -0.476 
_atom_site.Cartn_y               4.887 
_atom_site.Cartn_z               -8.023 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        23.38 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          MG 
_atom_site.auth_comp_id          MG 
_atom_site.auth_seq_id           102 
_atom_site.auth_asym_id          B 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              69 
_model_server_stats.parse_time_ms           30 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           1015 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           1 
#