data_2NV4 # _model_server_result.job_id guJ-Cle-eL8MmcfCsAWqSw _model_server_result.datetime_utc '2024-11-01 12:17:59' _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 2nv4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":202}' # _entry.id 2NV4 # _exptl.entry_id 2NV4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 398.437 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description S-ADENOSYLMETHIONINE _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 90 _cell.entry_id 2NV4 _cell.length_a 48.812 _cell.length_b 73.496 _cell.length_c 78.545 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2NV4 _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 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,F,G _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 D N N ? 3 E 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 A SG CYS 130 A CYS 130 1_555 B SG CYS 130 B CYS 130 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale1 A C MSE 1 A MSE 1 1_555 A N ILE 2 A ILE 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale2 A C TRP 56 A TRP 56 1_555 A N MSE 57 A MSE 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale3 A C MSE 57 A MSE 57 1_555 A N ASP 58 A ASP 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale4 B C MSE 1 B MSE 1 1_555 B N ILE 2 B ILE 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale5 B C TRP 56 B TRP 56 1_555 B N MSE 57 B MSE 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale6 B C MSE 57 B MSE 57 1_555 B N ASP 58 B ASP 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? # _chem_comp.formula 'C15 H22 N6 O5 S' _chem_comp.formula_weight 398.437 _chem_comp.id SAM _chem_comp.mon_nstd_flag . _chem_comp.name S-ADENOSYLMETHIONINE _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 N CA SAM sing 302 n n N HN1 SAM sing 303 n n N HN2 SAM sing 304 n n CA C SAM sing 305 n n CA CB SAM sing 306 n n CA HA SAM sing 307 n n C O SAM doub 308 n n C OXT SAM sing 309 n n CB CG SAM sing 310 n n CB HB1 SAM sing 311 n n CB HB2 SAM sing 312 n n CG SD SAM sing 313 n n CG HG1 SAM sing 314 n n CG HG2 SAM sing 315 n n SD CE SAM sing 316 n n SD C5' SAM sing 317 n n CE HE1 SAM sing 318 n n CE HE2 SAM sing 319 n n CE HE3 SAM sing 320 n n C5' C4' SAM sing 321 n n C5' "H5'1" SAM sing 322 n n C5' "H5'2" SAM sing 323 n n C4' O4' SAM sing 324 n n C4' C3' SAM sing 325 n n C4' H4' SAM sing 326 n n O4' C1' SAM sing 327 n n C3' O3' SAM sing 328 n n C3' C2' SAM sing 329 n n C3' H3' SAM sing 330 n n O3' HO3' SAM sing 331 n n C2' O2' SAM sing 332 n n C2' C1' SAM sing 333 n n C2' H2' SAM sing 334 n n O2' HO2' SAM sing 335 n n C1' N9 SAM sing 336 n n C1' H1' SAM sing 337 n n N9 C8 SAM sing 338 n y N9 C4 SAM sing 339 n y C8 N7 SAM doub 340 n y C8 H8 SAM sing 341 n n N7 C5 SAM sing 342 n y C5 C6 SAM sing 343 n y C5 C4 SAM doub 344 n y C6 N6 SAM sing 345 n n C6 N1 SAM doub 346 n y N6 HN61 SAM sing 347 n n N6 HN62 SAM sing 348 n n N1 C2 SAM sing 349 n y C2 N3 SAM doub 350 n y C2 H2 SAM sing 351 n n N3 C4 SAM sing 352 n y # _atom_sites.entry_id 2NV4 _atom_sites.fract_transf_matrix[1][1] 0.020487 _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] 0.013606 _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] 0.012732 _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 C 2 ACT A 1 148 1 ACT ACY . D 3 SAM A 1 201 201 SAM SAM . E 3 SAM B 1 202 202 SAM SAM . F 4 HOH A 1 202 2 HOH TIP . F 4 HOH A 2 203 5 HOH TIP . F 4 HOH A 3 204 6 HOH TIP . F 4 HOH A 4 205 7 HOH TIP . F 4 HOH A 5 206 9 HOH TIP . F 4 HOH A 6 207 10 HOH TIP . F 4 HOH A 7 208 11 HOH TIP . F 4 HOH A 8 209 20 HOH TIP . F 4 HOH A 9 210 21 HOH TIP . F 4 HOH A 10 211 22 HOH TIP . F 4 HOH A 11 212 23 HOH TIP . F 4 HOH A 12 213 28 HOH TIP . F 4 HOH A 13 214 29 HOH TIP . F 4 HOH A 14 215 32 HOH TIP . F 4 HOH A 15 216 33 HOH TIP . F 4 HOH A 16 217 34 HOH TIP . F 4 HOH A 17 218 39 HOH TIP . F 4 HOH A 18 219 41 HOH TIP . F 4 HOH A 19 220 43 HOH TIP . F 4 HOH A 20 221 47 HOH TIP . F 4 HOH A 21 222 49 HOH TIP . F 4 HOH A 22 223 50 HOH TIP . F 4 HOH A 23 224 52 HOH TIP . G 4 HOH B 1 203 1 HOH TIP . G 4 HOH B 2 204 3 HOH TIP . G 4 HOH B 3 205 4 HOH TIP . G 4 HOH B 4 206 8 HOH TIP . G 4 HOH B 5 207 12 HOH TIP . G 4 HOH B 6 208 13 HOH TIP . G 4 HOH B 7 209 14 HOH TIP . G 4 HOH B 8 210 15 HOH TIP . G 4 HOH B 9 211 16 HOH TIP . G 4 HOH B 10 212 17 HOH TIP . G 4 HOH B 11 213 18 HOH TIP . G 4 HOH B 12 214 19 HOH TIP . G 4 HOH B 13 215 24 HOH TIP . G 4 HOH B 14 216 25 HOH TIP . G 4 HOH B 15 217 26 HOH TIP . G 4 HOH B 16 218 27 HOH TIP . G 4 HOH B 17 219 30 HOH TIP . G 4 HOH B 18 220 31 HOH TIP . G 4 HOH B 19 221 35 HOH TIP . G 4 HOH B 20 222 36 HOH TIP . G 4 HOH B 21 223 37 HOH TIP . G 4 HOH B 22 224 38 HOH TIP . G 4 HOH B 23 225 40 HOH TIP . G 4 HOH B 24 226 42 HOH TIP . G 4 HOH B 25 227 44 HOH TIP . G 4 HOH B 26 228 45 HOH TIP . G 4 HOH B 27 229 46 HOH TIP . G 4 HOH B 28 230 48 HOH TIP . G 4 HOH B 29 231 51 HOH TIP . # 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 N N SAM . . . E 3 14.127 23.716 18.805 1 42.79 ? N SAM 202 B 1 HETATM 2 C CA SAM . . . E 3 13.268 24.704 18.127 1 42.99 ? CA SAM 202 B 1 HETATM 3 C C SAM . . . E 3 12.711 25.673 19.087 1 42.88 ? C SAM 202 B 1 HETATM 4 O O SAM . . . E 3 11.986 26.563 18.693 1 42.39 ? O SAM 202 B 1 HETATM 5 O OXT SAM . . . E 3 12.981 25.577 20.255 1 48.65 ? OXT SAM 202 B 1 HETATM 6 C CB SAM . . . E 3 12.096 24.042 17.453 1 44.71 ? CB SAM 202 B 1 HETATM 7 C CG SAM . . . E 3 12.634 23.063 16.482 1 40.55 ? CG SAM 202 B 1 HETATM 8 S SD SAM . . . E 3 11.293 22.281 15.597 1 39.53 ? SD SAM 202 B 1 HETATM 9 C CE SAM . . . E 3 10.539 21.242 16.882 1 35.55 ? CE SAM 202 B 1 HETATM 10 C C5' SAM . . . E 3 12.269 21.235 14.527 1 36.84 ? C5' SAM 202 B 1 HETATM 11 C C4' SAM . . . E 3 11.336 20.521 13.629 1 34.49 ? C4' SAM 202 B 1 HETATM 12 O O4' SAM . . . E 3 10.577 21.486 12.851 1 31.98 ? O4' SAM 202 B 1 HETATM 13 C C3' SAM . . . E 3 12.078 19.579 12.689 1 33.44 ? C3' SAM 202 B 1 HETATM 14 O O3' SAM . . . E 3 11.885 18.203 12.995 1 38.31 ? O3' SAM 202 B 1 HETATM 15 C C2' SAM . . . E 3 11.604 19.964 11.279 1 32.41 ? C2' SAM 202 B 1 HETATM 16 O O2' SAM . . . E 3 10.833 18.9 10.729 1 34.39 ? O2' SAM 202 B 1 HETATM 17 C C1' SAM . . . E 3 10.737 21.237 11.437 1 31.4 ? C1' SAM 202 B 1 HETATM 18 N N9 SAM . . . E 3 11.377 22.355 10.669 1 28.4 ? N9 SAM 202 B 1 HETATM 19 C C8 SAM . . . E 3 12.676 22.827 10.752 1 25.25 ? C8 SAM 202 B 1 HETATM 20 N N7 SAM . . . E 3 12.857 23.791 9.894 1 23.93 ? N7 SAM 202 B 1 HETATM 21 C C5 SAM . . . E 3 11.713 24.013 9.206 1 23.74 ? C5 SAM 202 B 1 HETATM 22 C C6 SAM . . . E 3 11.305 24.901 8.157 1 24.44 ? C6 SAM 202 B 1 HETATM 23 N N6 SAM . . . E 3 12.182 25.82 7.594 1 24.3 ? N6 SAM 202 B 1 HETATM 24 N N1 SAM . . . E 3 10.024 24.825 7.713 1 26.07 ? N1 SAM 202 B 1 HETATM 25 C C2 SAM . . . E 3 9.143 23.948 8.224 1 26.14 ? C2 SAM 202 B 1 HETATM 26 N N3 SAM . . . E 3 9.487 23.105 9.187 1 25.62 ? N3 SAM 202 B 1 HETATM 27 C C4 SAM . . . E 3 10.74 23.098 9.703 1 25.69 ? C4 SAM 202 B 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 331 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 27 #