data_1YCL
#
_model_server_result.job_id            XvJSZN3utx-xHWY_O9jwsA 
_model_server_result.datetime_utc      '2024-11-18 08:30:06' 
_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          1ycl 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":401}' 
#
_entry.id    1YCL 
#
_exptl.entry_id    1YCL 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              267.299 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(S)-2-AMINO-4-[(2S,3R)-2,3,5-TRIHYDROXY-4-OXO-PENTYL]MERCAPTO-BUTYRIC ACID' 
_entity.pdbx_number_of_molecules    1 
_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            1YCL 
_cell.length_a            62.53 
_cell.length_b            62.53 
_cell.length_c            149.65 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1YCL 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        179 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 65 2 2' 
#
_pdbx_struct_assembly.method_details        PISA,PQS 
_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 12_564 x,x-y+1,-z-1/6 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 -31.265 54.152568 -24.941667 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      4 
_struct_asym.id                             D 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 NE2 HIS 53 A HIS 54 1_555 B CO CO . A CO 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? 
metalc ? metalc2 A NE2 HIS 57 A HIS 58 1_555 B CO CO . A CO 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? 
metalc ? metalc3 A SG CYS 125 A CYS 126 1_555 B CO CO . A CO 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.381 ? 
metalc ? metalc4 D O2 KRI . A KRI 401 1_555 B CO CO . A CO 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.228 ? 
#
_chem_comp.formula           'C9 H17 N O6 S' 
_chem_comp.formula_weight    267.299 
_chem_comp.id                KRI 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(S)-2-AMINO-4-[(2S,3R)-2,3,5-TRIHYDROXY-4-OXO-PENTYL]MERCAPTO-BUTYRIC ACID' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
loop_
_chem_comp_bond.atom_id_1
_chem_comp_bond.atom_id_2
_chem_comp_bond.comp_id
_chem_comp_bond.value_order
_chem_comp_bond.pdbx_ordinal
_chem_comp_bond.pdbx_stereo_config
_chem_comp_bond.pdbx_aromatic_flag
O C KRI doub 173 n n 
C OXT KRI sing 174 n n 
C CA KRI sing 175 n n 
OXT HXT KRI sing 176 n n 
CA N KRI sing 177 n n 
CA CB KRI sing 178 n n 
CA HA KRI sing 179 n n 
N HN1 KRI sing 180 n n 
N HN2 KRI sing 181 n n 
CB CG KRI sing 182 n n 
CB HB1 KRI sing 183 n n 
CB HB2 KRI sing 184 n n 
CG SD KRI sing 185 n n 
CG HG1 KRI sing 186 n n 
CG HG2 KRI sing 187 n n 
SD C5 KRI sing 188 n n 
C5 C4 KRI sing 189 n n 
C5 H51 KRI sing 190 n n 
C5 H52 KRI sing 191 n n 
C4 O4 KRI sing 192 n n 
C4 C3 KRI sing 193 n n 
C4 H4 KRI sing 194 n n 
O4 HO4 KRI sing 195 n n 
C3 O3 KRI sing 196 n n 
C3 C2 KRI sing 197 n n 
C3 H3 KRI sing 198 n n 
O3 HO3 KRI sing 199 n n 
C2 O2 KRI doub 200 n n 
C2 C1 KRI sing 201 n n 
C1 O1 KRI sing 202 n n 
C1 H11 KRI sing 203 n n 
C1 H12 KRI sing 204 n n 
O1 HO1 KRI sing 205 n n 
#
_atom_sites.entry_id                     1YCL 
_atom_sites.fract_transf_matrix[1][1]    0.015992 
_atom_sites.fract_transf_matrix[1][2]    0.009233 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.018466 
_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]    0.006682 
_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 CO A 1 501 501 CO CO2 . 
C 3 SO4 A 1 601 601 SO4 SO4 . 
D 4 KRI A 1 401 401 KRI KRI . 
E 5 HOH A 1 200 200 HOH WAT . 
E 5 HOH A 2 201 201 HOH WAT . 
E 5 HOH A 3 202 202 HOH WAT . 
E 5 HOH A 4 203 203 HOH WAT . 
E 5 HOH A 5 204 204 HOH WAT . 
E 5 HOH A 6 205 205 HOH WAT . 
E 5 HOH A 7 206 206 HOH WAT . 
E 5 HOH A 8 207 207 HOH WAT . 
E 5 HOH A 9 208 208 HOH WAT . 
E 5 HOH A 10 209 209 HOH WAT . 
E 5 HOH A 11 210 210 HOH WAT . 
E 5 HOH A 12 211 211 HOH WAT . 
E 5 HOH A 13 212 212 HOH WAT . 
E 5 HOH A 14 213 213 HOH WAT . 
E 5 HOH A 15 214 214 HOH WAT . 
E 5 HOH A 16 215 215 HOH WAT . 
E 5 HOH A 17 216 216 HOH WAT . 
E 5 HOH A 18 217 217 HOH WAT . 
E 5 HOH A 19 218 218 HOH WAT . 
E 5 HOH A 20 219 219 HOH WAT . 
E 5 HOH A 21 220 220 HOH WAT . 
E 5 HOH A 22 221 221 HOH WAT . 
E 5 HOH A 23 222 222 HOH WAT . 
E 5 HOH A 24 223 223 HOH WAT . 
E 5 HOH A 25 224 224 HOH WAT . 
E 5 HOH A 26 225 225 HOH WAT . 
E 5 HOH A 27 226 226 HOH WAT . 
E 5 HOH A 28 227 227 HOH WAT . 
E 5 HOH A 29 228 228 HOH WAT . 
E 5 HOH A 30 229 229 HOH WAT . 
E 5 HOH A 31 230 230 HOH WAT . 
E 5 HOH A 32 231 231 HOH WAT . 
E 5 HOH A 33 232 232 HOH WAT . 
E 5 HOH A 34 233 233 HOH WAT . 
E 5 HOH A 35 234 234 HOH WAT . 
E 5 HOH A 36 235 235 HOH WAT . 
E 5 HOH A 37 236 236 HOH WAT . 
E 5 HOH A 38 237 237 HOH WAT . 
E 5 HOH A 39 238 238 HOH WAT . 
E 5 HOH A 40 239 239 HOH WAT . 
E 5 HOH A 41 240 240 HOH WAT . 
E 5 HOH A 42 241 241 HOH WAT . 
E 5 HOH A 43 242 242 HOH WAT . 
E 5 HOH A 44 243 243 HOH WAT . 
E 5 HOH A 45 244 244 HOH WAT . 
E 5 HOH A 46 245 245 HOH WAT . 
E 5 HOH A 47 246 246 HOH WAT . 
E 5 HOH A 48 247 247 HOH WAT . 
E 5 HOH A 49 248 248 HOH WAT . 
E 5 HOH A 50 249 249 HOH WAT . 
E 5 HOH A 51 250 250 HOH WAT . 
E 5 HOH A 52 251 251 HOH WAT . 
E 5 HOH A 53 252 252 HOH WAT . 
E 5 HOH A 54 253 253 HOH WAT . 
E 5 HOH A 55 254 254 HOH WAT . 
E 5 HOH A 56 255 255 HOH WAT . 
E 5 HOH A 57 256 256 HOH WAT . 
E 5 HOH A 58 257 257 HOH WAT . 
E 5 HOH A 59 258 258 HOH WAT . 
E 5 HOH A 60 259 259 HOH WAT . 
E 5 HOH A 61 260 260 HOH WAT . 
E 5 HOH A 62 261 261 HOH WAT . 
E 5 HOH A 63 262 262 HOH WAT . 
E 5 HOH A 64 263 263 HOH WAT . 
E 5 HOH A 65 264 264 HOH WAT . 
E 5 HOH A 66 265 265 HOH WAT . 
E 5 HOH A 67 266 266 HOH WAT . 
E 5 HOH A 68 267 267 HOH WAT . 
E 5 HOH A 69 268 268 HOH WAT . 
E 5 HOH A 70 269 269 HOH WAT . 
E 5 HOH A 71 270 270 HOH WAT . 
E 5 HOH A 72 271 271 HOH WAT . 
E 5 HOH A 73 272 272 HOH WAT . 
E 5 HOH A 74 273 273 HOH WAT . 
E 5 HOH A 75 274 274 HOH WAT . 
E 5 HOH A 76 275 275 HOH WAT . 
E 5 HOH A 77 276 276 HOH WAT . 
E 5 HOH A 78 277 277 HOH WAT . 
E 5 HOH A 79 278 278 HOH WAT . 
E 5 HOH A 80 279 279 HOH WAT . 
E 5 HOH A 81 280 280 HOH WAT . 
E 5 HOH A 82 281 281 HOH WAT . 
E 5 HOH A 83 282 282 HOH WAT . 
E 5 HOH A 84 283 283 HOH WAT . 
E 5 HOH A 85 284 284 HOH WAT . 
E 5 HOH A 86 285 285 HOH WAT . 
E 5 HOH A 87 286 286 HOH WAT . 
E 5 HOH A 88 287 287 HOH WAT . 
E 5 HOH A 89 288 288 HOH WAT . 
E 5 HOH A 90 289 289 HOH WAT . 
E 5 HOH A 91 290 290 HOH WAT . 
E 5 HOH A 92 291 291 HOH WAT . 
E 5 HOH A 93 292 292 HOH WAT . 
E 5 HOH A 94 293 293 HOH WAT . 
E 5 HOH A 95 294 294 HOH WAT . 
E 5 HOH A 96 295 295 HOH WAT . 
E 5 HOH A 97 296 296 HOH WAT . 
E 5 HOH A 98 297 297 HOH WAT . 
E 5 HOH A 99 298 298 HOH WAT . 
E 5 HOH A 100 299 299 HOH WAT . 
E 5 HOH A 101 300 300 HOH WAT . 
E 5 HOH A 102 301 301 HOH WAT . 
E 5 HOH A 103 302 302 HOH WAT . 
#
loop_
_atom_site.group_PDB
_atom_site.id
_atom_site.type_symbol
_atom_site.label_atom_id
_atom_site.label_comp_id
_atom_site.label_seq_id
_atom_site.label_alt_id
_atom_site.pdbx_PDB_ins_code
_atom_site.label_asym_id
_atom_site.label_entity_id
_atom_site.Cartn_x
_atom_site.Cartn_y
_atom_site.Cartn_z
_atom_site.occupancy
_atom_site.B_iso_or_equiv
_atom_site.pdbx_formal_charge
_atom_site.auth_atom_id
_atom_site.auth_comp_id
_atom_site.auth_seq_id
_atom_site.auth_asym_id
_atom_site.pdbx_PDB_model_num
HETATM 1 O O KRI . . . D 4 -19.392 33.987 -15.688 1 44.87 ? O KRI 401 A 1 
HETATM 2 C C KRI . . . D 4 -19.409 33.093 -14.844 1 44.74 ? C KRI 401 A 1 
HETATM 3 O OXT KRI . . . D 4 -19.014 33.334 -13.705 1 43.23 ? OXT KRI 401 A 1 
HETATM 4 C CA KRI . . . D 4 -19.92 31.696 -15.207 1 44.94 ? CA KRI 401 A 1 
HETATM 5 N N KRI . . . D 4 -19.326 30.704 -14.299 1 44.08 ? N KRI 401 A 1 
HETATM 6 C CB KRI . . . D 4 -21.444 31.638 -15.084 1 46.35 ? CB KRI 401 A 1 
HETATM 7 C CG KRI . . . D 4 -22.133 32.53 -16.12 1 48.38 ? CG KRI 401 A 1 
HETATM 8 S SD KRI . . . D 4 -23.957 32.507 -15.982 1 51.17 ? SD KRI 401 A 1 
HETATM 9 C C5 KRI . . . D 4 -24.3 30.805 -16.558 1 50.18 ? C5 KRI 401 A 1 
HETATM 10 C C4 KRI . . . D 4 -25.005 30.763 -17.915 1 49.6 ? C4 KRI 401 A 1 
HETATM 11 O O4 KRI . . . D 4 -24.185 31.415 -18.888 1 51.14 ? O4 KRI 401 A 1 
HETATM 12 C C3 KRI . . . D 4 -25.263 29.318 -18.348 1 48.42 ? C3 KRI 401 A 1 
HETATM 13 O O3 KRI . . . D 4 -26.1 28.678 -17.381 1 47.28 ? O3 KRI 401 A 1 
HETATM 14 C C2 KRI . . . D 4 -25.96 29.306 -19.71 1 46.44 ? C2 KRI 401 A 1 
HETATM 15 O O2 KRI . . . D 4 -27.121 29.697 -19.817 1 45.45 ? O2 KRI 401 A 1 
HETATM 16 C C1 KRI . . . D 4 -25.195 28.805 -20.937 1 46.04 ? C1 KRI 401 A 1 
HETATM 17 O O1 KRI . . . D 4 -24.234 29.768 -21.379 1 45.91 ? O1 KRI 401 A 1 
#
_model_server_stats.io_time_ms              16 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           313 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           17 
#