data_4Y99 # _model_server_result.job_id j7_fRV33inyoZBIW0z0pnA _model_server_result.datetime_utc '2024-11-12 19:38:03' _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 4y99 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":501}' # _entry.id 4Y99 # _exptl.entry_id 4Y99 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 78.133 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'DIMETHYL SULFOXIDE' _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 4Y99 _cell.length_a 66.062 _cell.length_b 80.368 _cell.length_c 93.712 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4Y99 _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 trimeric _pdbx_struct_assembly.oligomeric_count 3 _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,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 ? 5 G N N ? 5 H N N ? 5 I N N ? 5 J N N ? 5 K N N ? 5 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 OD2 ASP 65 A ASP 65 1_555 D CA CA . A CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.103 ? metalc ? metalc2 A OD2 ASP 67 A ASP 67 1_555 D CA CA . A CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.394 ? metalc ? metalc3 A OG SER 69 A SER 69 1_555 D CA CA . A CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.382 ? metalc ? metalc4 A O THR 71 A THR 71 1_555 D CA CA . A CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? metalc ? metalc5 A OE1 GLU 76 A GLU 76 1_555 D CA CA . A CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.63 ? metalc ? metalc6 A OE2 GLU 76 A GLU 76 1_555 D CA CA . A CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.518 ? metalc ? metalc7 A OD1 ASP 105 A ASP 105 1_555 F CA CA . A CA 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.432 ? metalc ? metalc8 A OD1 ASN 107 A ASN 107 1_555 F CA CA . A CA 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc9 A OD2 ASP 109 A ASP 109 1_555 F CA CA . A CA 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.395 ? metalc ? metalc10 A O TYR 111 A TYR 111 1_555 F CA CA . A CA 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? metalc ? metalc11 A OE1 GLU 116 A GLU 116 1_555 F CA CA . A CA 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.539 ? metalc ? metalc12 A OE2 GLU 116 A GLU 116 1_555 F CA CA . A CA 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.463 ? metalc ? metalc13 A OD1 ASP 141 A ASP 141 1_555 E CA CA . A CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.394 ? metalc ? metalc14 A OD1 ASN 143 A ASN 143 1_555 E CA CA . A CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.432 ? metalc ? metalc15 A OD1 ASP 145 A ASP 145 1_555 E CA CA . A CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.448 ? metalc ? metalc16 A O ARG 147 A ARG 147 1_555 E CA CA . A CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.25 ? metalc ? metalc17 A OE1 GLU 152 A GLU 152 1_555 E CA CA . A CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.416 ? metalc ? metalc18 A OE2 GLU 152 A GLU 152 1_555 E CA CA . A CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.592 ? metalc ? metalc19 D CA CA . A CA 201 1_555 M O HOH . A HOH 319 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.132 ? metalc ? metalc20 E CA CA . A CA 202 1_555 M O HOH . A HOH 321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.431 ? metalc ? metalc21 F CA CA . A CA 203 1_555 M O HOH . A HOH 320 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.115 ? # _chem_comp.formula 'C2 H6 O S' _chem_comp.formula_weight 78.133 _chem_comp.id DMS _chem_comp.mon_nstd_flag . _chem_comp.name 'DIMETHYL SULFOXIDE' _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 S O DMS doub 83 n n S C1 DMS sing 84 n n S C2 DMS sing 85 n n C1 H11 DMS sing 86 n n C1 H12 DMS sing 87 n n C1 H13 DMS sing 88 n n C2 H21 DMS sing 89 n n C2 H22 DMS sing 90 n n C2 H23 DMS sing 91 n n # _atom_sites.entry_id 4Y99 _atom_sites.fract_transf_matrix[1][1] 0.015137 _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] 0.012443 _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] 0.010671 _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 D 4 CA A 1 201 600 CA CA . E 4 CA A 1 202 601 CA CA . F 4 CA A 1 203 602 CA CA . G 5 DMS A 1 204 503 DMS DMS . H 5 DMS A 1 205 504 DMS DMS . I 5 DMS B 1 301 502 DMS DMS . J 5 DMS B 1 302 506 DMS DMS . K 5 DMS C 1 501 501 DMS DMS . L 5 DMS C 1 502 505 DMS DMS . M 6 HOH A 1 301 45 HOH HOH . M 6 HOH A 2 302 2 HOH HOH . M 6 HOH A 3 303 30 HOH HOH . M 6 HOH A 4 304 1 HOH HOH . M 6 HOH A 5 305 3 HOH HOH . M 6 HOH A 6 306 28 HOH HOH . M 6 HOH A 7 307 36 HOH HOH . M 6 HOH A 8 308 34 HOH HOH . M 6 HOH A 9 309 66 HOH HOH . M 6 HOH A 10 310 65 HOH HOH . M 6 HOH A 11 311 4 HOH HOH . M 6 HOH A 12 312 9 HOH HOH . M 6 HOH A 13 313 13 HOH HOH . M 6 HOH A 14 314 14 HOH HOH . M 6 HOH A 15 315 18 HOH HOH . M 6 HOH A 16 316 25 HOH HOH . M 6 HOH A 17 317 33 HOH HOH . M 6 HOH A 18 318 39 HOH HOH . M 6 HOH A 19 319 58 HOH HOH . M 6 HOH A 20 320 59 HOH HOH . M 6 HOH A 21 321 60 HOH HOH . M 6 HOH A 22 322 62 HOH HOH . M 6 HOH A 23 323 68 HOH HOH . M 6 HOH A 24 324 70 HOH HOH . M 6 HOH A 25 325 73 HOH HOH . M 6 HOH A 26 326 74 HOH HOH . M 6 HOH A 27 327 75 HOH HOH . M 6 HOH A 28 328 78 HOH HOH . M 6 HOH A 29 329 83 HOH HOH . M 6 HOH A 30 330 91 HOH HOH . M 6 HOH A 31 331 92 HOH HOH . M 6 HOH A 32 332 94 HOH HOH . M 6 HOH A 33 333 97 HOH HOH . M 6 HOH A 34 334 101 HOH HOH . N 6 HOH B 1 401 86 HOH HOH . N 6 HOH B 2 402 5 HOH HOH . N 6 HOH B 3 403 102 HOH HOH . N 6 HOH B 4 404 10 HOH HOH . N 6 HOH B 5 405 85 HOH HOH . N 6 HOH B 6 406 79 HOH HOH . N 6 HOH B 7 407 7 HOH HOH . N 6 HOH B 8 408 11 HOH HOH . N 6 HOH B 9 409 53 HOH HOH . N 6 HOH B 10 410 80 HOH HOH . N 6 HOH B 11 411 44 HOH HOH . N 6 HOH B 12 412 20 HOH HOH . N 6 HOH B 13 413 21 HOH HOH . N 6 HOH B 14 414 27 HOH HOH . N 6 HOH B 15 415 35 HOH HOH . N 6 HOH B 16 416 51 HOH HOH . N 6 HOH B 17 417 54 HOH HOH . N 6 HOH B 18 418 55 HOH HOH . N 6 HOH B 19 419 56 HOH HOH . N 6 HOH B 20 420 57 HOH HOH . N 6 HOH B 21 421 71 HOH HOH . N 6 HOH B 22 422 72 HOH HOH . N 6 HOH B 23 423 82 HOH HOH . N 6 HOH B 24 424 87 HOH HOH . N 6 HOH B 25 425 89 HOH HOH . O 6 HOH C 1 601 46 HOH HOH . O 6 HOH C 2 602 90 HOH HOH . O 6 HOH C 3 603 43 HOH HOH . O 6 HOH C 4 604 24 HOH HOH . O 6 HOH C 5 605 42 HOH HOH . O 6 HOH C 6 606 19 HOH HOH . O 6 HOH C 7 607 32 HOH HOH . O 6 HOH C 8 608 26 HOH HOH . O 6 HOH C 9 609 48 HOH HOH . O 6 HOH C 10 610 99 HOH HOH . O 6 HOH C 11 611 31 HOH HOH . O 6 HOH C 12 612 50 HOH HOH . O 6 HOH C 13 613 29 HOH HOH . O 6 HOH C 14 614 22 HOH HOH . O 6 HOH C 15 615 41 HOH HOH . O 6 HOH C 16 616 47 HOH HOH . O 6 HOH C 17 617 96 HOH HOH . O 6 HOH C 18 618 95 HOH HOH . O 6 HOH C 19 619 61 HOH HOH . O 6 HOH C 20 620 6 HOH HOH . O 6 HOH C 21 621 8 HOH HOH . O 6 HOH C 22 622 12 HOH HOH . O 6 HOH C 23 623 15 HOH HOH . O 6 HOH C 24 624 16 HOH HOH . O 6 HOH C 25 625 17 HOH HOH . O 6 HOH C 26 626 23 HOH HOH . O 6 HOH C 27 627 37 HOH HOH . O 6 HOH C 28 628 38 HOH HOH . O 6 HOH C 29 629 40 HOH HOH . O 6 HOH C 30 630 49 HOH HOH . O 6 HOH C 31 631 52 HOH HOH . O 6 HOH C 32 632 63 HOH HOH . O 6 HOH C 33 633 64 HOH HOH . O 6 HOH C 34 634 67 HOH HOH . O 6 HOH C 35 635 69 HOH HOH . O 6 HOH C 36 636 76 HOH HOH . O 6 HOH C 37 637 77 HOH HOH . O 6 HOH C 38 638 81 HOH HOH . O 6 HOH C 39 639 84 HOH HOH . O 6 HOH C 40 640 88 HOH HOH . O 6 HOH C 41 641 93 HOH HOH . O 6 HOH C 42 642 98 HOH HOH . O 6 HOH C 43 643 100 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 S S DMS . . . K 5 45.67 33.475 23.842 1 67.16 ? S DMS 501 C 1 HETATM 2 O O DMS . . . K 5 44.416 33.759 22.584 1 67.09 ? O DMS 501 C 1 HETATM 3 C C1 DMS . . . K 5 46.099 31.711 23.85 1 67.07 ? C1 DMS 501 C 1 HETATM 4 C C2 DMS . . . K 5 47.234 34.2 23.262 1 67.68 ? C2 DMS 501 C 1 # _model_server_stats.io_time_ms 60 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 4 #