data_2H9D
#
_model_server_result.job_id            ZHvDeoccE5CGJXInAyz7gQ 
_model_server_result.datetime_utc      '2024-11-13 11:19:35' 
_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          2h9d 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":202}' 
#
_entry.id    2H9D 
#
_exptl.entry_id    2H9D 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              88.062 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PYRUVIC ACID' 
_entity.pdbx_number_of_molecules    6 
_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            2H9D 
_cell.length_a            54.523 
_cell.length_b            74.636 
_cell.length_c            88.902 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2H9D 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 author_and_software_defined_assembly 2 
PISA tetrameric 4 software_defined_assembly 3 
PISA tetrameric 4 software_defined_assembly 4 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,E,F,L,M 1 1 
C,D,G,H,I,J,K,N,O 2 1 
A,B,C,D,E,F,G,H,I,J,K,L,M,N,O 3 1 
C,D,G,H,I,J,K,N,O 4 1 
A,B,E,F,L,M 4 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' 2_455 -x-1/2,-y,z+1/2 -1 0 0 0 -1 0 0 0 1 -27.2615 0 44.451 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 E N N 
? 2 F N N 
? 2 G N N 
? 2 H N N 
? 2 I N N 
? 2 K 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 OE1 GLU 15 A GLU 15 2_455 J CA CA . D CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.959 ? 
metalc ? metalc2 A OE2 GLU 15 A GLU 15 2_455 J CA CA . D CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.59 ? 
metalc ? metalc3 A OD2 ASP 18 A ASP 18 2_455 J CA CA . D CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.552 ? 
metalc ? metalc4 N O HOH . C HOH 238 1_555 J CA CA . D CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.475 ? 
metalc ? metalc5 D OE1 GLU 15 D GLU 15 1_555 J CA CA . D CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.068 ? 
metalc ? metalc6 D OE2 GLU 15 D GLU 15 1_555 J CA CA . D CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.527 ? 
metalc ? metalc7 D OD2 ASP 18 D ASP 18 1_555 J CA CA . D CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.597 ? 
metalc ? metalc8 J CA CA . D CA 301 1_555 O O HOH . D HOH 343 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.707 ? 
#
_chem_comp.formula           'C3 H4 O3' 
_chem_comp.formula_weight    88.062 
_chem_comp.id                PYR 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'PYRUVIC 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
C O PYR doub 277 n n 
C OXT PYR sing 278 n n 
C CA PYR sing 279 n n 
OXT HXT PYR sing 280 n n 
CA O3 PYR doub 281 n n 
CA CB PYR sing 282 n n 
CB HB1 PYR sing 283 n n 
CB HB2 PYR sing 284 n n 
CB HB3 PYR sing 285 n n 
#
_atom_sites.entry_id                     2H9D 
_atom_sites.fract_transf_matrix[1][1]    0.018341 
_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]    0.013398 
_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]    0.011248 
_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 PYR A 1 205 5 PYR PYR . 
F 2 PYR B 1 204 4 PYR PYR . 
G 2 PYR C 1 201 1 PYR PYR . 
H 2 PYR C 1 203 3 PYR PYR . 
I 2 PYR C 1 206 6 PYR PYR . 
J 3 CA D 1 301 1 CA CA . 
K 2 PYR D 1 202 2 PYR PYR . 
L 4 HOH A 1 206 10 HOH HOH . 
L 4 HOH A 2 207 11 HOH HOH . 
L 4 HOH A 3 208 15 HOH HOH . 
L 4 HOH A 4 209 17 HOH HOH . 
L 4 HOH A 5 210 18 HOH HOH . 
L 4 HOH A 6 211 24 HOH HOH . 
L 4 HOH A 7 212 25 HOH HOH . 
L 4 HOH A 8 213 38 HOH HOH . 
L 4 HOH A 9 214 39 HOH HOH . 
L 4 HOH A 10 215 53 HOH HOH . 
L 4 HOH A 11 216 54 HOH HOH . 
L 4 HOH A 12 217 59 HOH HOH . 
L 4 HOH A 13 218 60 HOH HOH . 
L 4 HOH A 14 219 62 HOH HOH . 
L 4 HOH A 15 220 76 HOH HOH . 
L 4 HOH A 16 221 77 HOH HOH . 
L 4 HOH A 17 222 82 HOH HOH . 
L 4 HOH A 18 223 83 HOH HOH . 
L 4 HOH A 19 224 88 HOH HOH . 
L 4 HOH A 20 225 89 HOH HOH . 
L 4 HOH A 21 226 94 HOH HOH . 
L 4 HOH A 22 227 99 HOH HOH . 
L 4 HOH A 23 228 100 HOH HOH . 
L 4 HOH A 24 229 101 HOH HOH . 
L 4 HOH A 25 230 106 HOH HOH . 
L 4 HOH A 26 231 107 HOH HOH . 
L 4 HOH A 27 232 118 HOH HOH . 
L 4 HOH A 28 233 126 HOH HOH . 
L 4 HOH A 29 234 133 HOH HOH . 
L 4 HOH A 30 235 134 HOH HOH . 
L 4 HOH A 31 236 136 HOH HOH . 
L 4 HOH A 32 237 140 HOH HOH . 
L 4 HOH A 33 238 150 HOH HOH . 
L 4 HOH A 34 239 159 HOH HOH . 
L 4 HOH A 35 240 162 HOH HOH . 
L 4 HOH A 36 241 168 HOH HOH . 
L 4 HOH A 37 242 176 HOH HOH . 
L 4 HOH A 38 243 177 HOH HOH . 
L 4 HOH A 39 244 179 HOH HOH . 
L 4 HOH A 40 245 180 HOH HOH . 
M 4 HOH B 1 205 3 HOH HOH . 
M 4 HOH B 2 206 12 HOH HOH . 
M 4 HOH B 3 207 22 HOH HOH . 
M 4 HOH B 4 208 32 HOH HOH . 
M 4 HOH B 5 209 41 HOH HOH . 
M 4 HOH B 6 210 56 HOH HOH . 
M 4 HOH B 7 211 57 HOH HOH . 
M 4 HOH B 8 212 61 HOH HOH . 
M 4 HOH B 9 213 87 HOH HOH . 
M 4 HOH B 10 214 93 HOH HOH . 
M 4 HOH B 11 215 95 HOH HOH . 
M 4 HOH B 12 216 96 HOH HOH . 
M 4 HOH B 13 217 97 HOH HOH . 
M 4 HOH B 14 218 105 HOH HOH . 
M 4 HOH B 15 219 109 HOH HOH . 
M 4 HOH B 16 220 114 HOH HOH . 
M 4 HOH B 17 221 119 HOH HOH . 
M 4 HOH B 18 222 120 HOH HOH . 
M 4 HOH B 19 223 121 HOH HOH . 
M 4 HOH B 20 224 127 HOH HOH . 
M 4 HOH B 21 225 128 HOH HOH . 
M 4 HOH B 22 226 132 HOH HOH . 
M 4 HOH B 23 227 139 HOH HOH . 
M 4 HOH B 24 228 141 HOH HOH . 
M 4 HOH B 25 229 144 HOH HOH . 
M 4 HOH B 26 230 146 HOH HOH . 
M 4 HOH B 27 231 156 HOH HOH . 
M 4 HOH B 28 232 157 HOH HOH . 
M 4 HOH B 29 233 160 HOH HOH . 
M 4 HOH B 30 234 164 HOH HOH . 
M 4 HOH B 31 235 167 HOH HOH . 
M 4 HOH B 32 236 169 HOH HOH . 
M 4 HOH B 33 237 171 HOH HOH . 
N 4 HOH C 1 207 2 HOH HOH . 
N 4 HOH C 2 208 8 HOH HOH . 
N 4 HOH C 3 209 14 HOH HOH . 
N 4 HOH C 4 210 16 HOH HOH . 
N 4 HOH C 5 211 19 HOH HOH . 
N 4 HOH C 6 212 20 HOH HOH . 
N 4 HOH C 7 213 31 HOH HOH . 
N 4 HOH C 8 214 37 HOH HOH . 
N 4 HOH C 9 215 40 HOH HOH . 
N 4 HOH C 10 216 43 HOH HOH . 
N 4 HOH C 11 217 45 HOH HOH . 
N 4 HOH C 12 218 46 HOH HOH . 
N 4 HOH C 13 219 47 HOH HOH . 
N 4 HOH C 14 220 48 HOH HOH . 
N 4 HOH C 15 221 49 HOH HOH . 
N 4 HOH C 16 222 51 HOH HOH . 
N 4 HOH C 17 223 52 HOH HOH . 
N 4 HOH C 18 224 55 HOH HOH . 
N 4 HOH C 19 225 58 HOH HOH . 
N 4 HOH C 20 226 64 HOH HOH . 
N 4 HOH C 21 227 65 HOH HOH . 
N 4 HOH C 22 228 67 HOH HOH . 
N 4 HOH C 23 229 69 HOH HOH . 
N 4 HOH C 24 230 71 HOH HOH . 
N 4 HOH C 25 231 73 HOH HOH . 
N 4 HOH C 26 232 81 HOH HOH . 
N 4 HOH C 27 233 86 HOH HOH . 
N 4 HOH C 28 234 91 HOH HOH . 
N 4 HOH C 29 235 92 HOH HOH . 
N 4 HOH C 30 236 111 HOH HOH . 
N 4 HOH C 31 237 113 HOH HOH . 
N 4 HOH C 32 238 115 HOH HOH . 
N 4 HOH C 33 239 117 HOH HOH . 
N 4 HOH C 34 240 122 HOH HOH . 
N 4 HOH C 35 241 129 HOH HOH . 
N 4 HOH C 36 242 135 HOH HOH . 
N 4 HOH C 37 243 137 HOH HOH . 
N 4 HOH C 38 244 142 HOH HOH . 
N 4 HOH C 39 245 143 HOH HOH . 
N 4 HOH C 40 246 145 HOH HOH . 
N 4 HOH C 41 247 154 HOH HOH . 
N 4 HOH C 42 248 158 HOH HOH . 
N 4 HOH C 43 249 165 HOH HOH . 
N 4 HOH C 44 250 173 HOH HOH . 
N 4 HOH C 45 251 174 HOH HOH . 
N 4 HOH C 46 252 175 HOH HOH . 
N 4 HOH C 47 253 178 HOH HOH . 
O 4 HOH D 1 302 1 HOH HOH . 
O 4 HOH D 2 303 4 HOH HOH . 
O 4 HOH D 3 304 5 HOH HOH . 
O 4 HOH D 4 305 6 HOH HOH . 
O 4 HOH D 5 306 7 HOH HOH . 
O 4 HOH D 6 307 9 HOH HOH . 
O 4 HOH D 7 308 13 HOH HOH . 
O 4 HOH D 8 309 21 HOH HOH . 
O 4 HOH D 9 310 23 HOH HOH . 
O 4 HOH D 10 311 26 HOH HOH . 
O 4 HOH D 11 312 27 HOH HOH . 
O 4 HOH D 12 313 28 HOH HOH . 
O 4 HOH D 13 314 29 HOH HOH . 
O 4 HOH D 14 315 30 HOH HOH . 
O 4 HOH D 15 316 33 HOH HOH . 
O 4 HOH D 16 317 34 HOH HOH . 
O 4 HOH D 17 318 35 HOH HOH . 
O 4 HOH D 18 319 36 HOH HOH . 
O 4 HOH D 19 320 42 HOH HOH . 
O 4 HOH D 20 321 44 HOH HOH . 
O 4 HOH D 21 322 50 HOH HOH . 
O 4 HOH D 22 323 63 HOH HOH . 
O 4 HOH D 23 324 66 HOH HOH . 
O 4 HOH D 24 325 68 HOH HOH . 
O 4 HOH D 25 326 70 HOH HOH . 
O 4 HOH D 26 327 72 HOH HOH . 
O 4 HOH D 27 328 74 HOH HOH . 
O 4 HOH D 28 329 75 HOH HOH . 
O 4 HOH D 29 330 78 HOH HOH . 
O 4 HOH D 30 331 79 HOH HOH . 
O 4 HOH D 31 332 80 HOH HOH . 
O 4 HOH D 32 333 84 HOH HOH . 
O 4 HOH D 33 334 85 HOH HOH . 
O 4 HOH D 34 335 90 HOH HOH . 
O 4 HOH D 35 336 98 HOH HOH . 
O 4 HOH D 36 337 102 HOH HOH . 
O 4 HOH D 37 338 103 HOH HOH . 
O 4 HOH D 38 339 104 HOH HOH . 
O 4 HOH D 39 340 108 HOH HOH . 
O 4 HOH D 40 341 110 HOH HOH . 
O 4 HOH D 41 342 112 HOH HOH . 
O 4 HOH D 42 343 116 HOH HOH . 
O 4 HOH D 43 344 123 HOH HOH . 
O 4 HOH D 44 345 124 HOH HOH . 
O 4 HOH D 45 346 125 HOH HOH . 
O 4 HOH D 46 347 130 HOH HOH . 
O 4 HOH D 47 348 131 HOH HOH . 
O 4 HOH D 48 349 138 HOH HOH . 
O 4 HOH D 49 350 147 HOH HOH . 
O 4 HOH D 50 351 148 HOH HOH . 
O 4 HOH D 51 352 149 HOH HOH . 
O 4 HOH D 52 353 151 HOH HOH . 
O 4 HOH D 53 354 152 HOH HOH . 
O 4 HOH D 54 355 153 HOH HOH . 
O 4 HOH D 55 356 155 HOH HOH . 
O 4 HOH D 56 357 161 HOH HOH . 
O 4 HOH D 57 358 163 HOH HOH . 
O 4 HOH D 58 359 166 HOH HOH . 
O 4 HOH D 59 360 170 HOH HOH . 
O 4 HOH D 60 361 172 HOH HOH . 
O 4 HOH D 61 362 181 HOH HOH . 
#
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 C C PYR . . . K 2 -3.411 -20.478 8.621 1 42.01 ? C PYR 202 D 1 
HETATM 2 O O PYR . . . K 2 -3.137 -19.571 9.371 1 40.56 ? O PYR 202 D 1 
HETATM 3 O OXT PYR . . . K 2 -4.683 -20.892 8.52 1 43.59 ? OXT PYR 202 D 1 
HETATM 4 C CA PYR . . . K 2 -2.344 -21.136 7.811 1 44.54 ? CA PYR 202 D 1 
HETATM 5 O O3 PYR . . . K 2 -2.627 -22.04 7.063 1 48.24 ? O3 PYR 202 D 1 
HETATM 6 C CB PYR . . . K 2 -0.913 -20.683 7.92 1 45.82 ? CB PYR 202 D 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           291 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           6 
#