data_4XOB # _model_server_result.job_id Hk6R8ZLeaNG7KJ29aLNogA _model_server_result.datetime_utc '2024-11-15 07:14:25' _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 4xob # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":500}' # _entry.id 4XOB # _exptl.entry_id 4XOB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 278.342 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'heptyl alpha-D-mannopyranoside' _entity.pdbx_number_of_molecules 4 _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 4XOB _cell.length_a 94.469 _cell.length_b 147.128 _cell.length_c 250.796 _cell.Z_PDB 32 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4XOB _symmetry.cell_setting ? _symmetry.Int_Tables_number 24 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 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 dimeric 2 author_and_software_defined_assembly 3 PISA dimeric 2 author_and_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,I,J,O,P 1 1 C,D,K,L,Q 2 1 E,F,M,R 3 1 G,H,N,S,T 4 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 I N N ? 3 K N N ? 3 M N N ? 3 N 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 161 A CYS 161 1_555 A SG CYS 187 A CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 C SG CYS 3 C CYS 3 1_555 C SG CYS 44 C CYS 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf3 C SG CYS 161 C CYS 161 1_555 C SG CYS 187 C CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 E SG CYS 161 E CYS 161 1_555 E SG CYS 187 E CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf5 G SG CYS 3 G CYS 3 1_555 G SG CYS 44 G CYS 44 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.032 ? disulf ? disulf6 G SG CYS 161 G CYS 161 1_555 G SG CYS 187 G CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? # _chem_comp.formula 'C13 H26 O6' _chem_comp.formula_weight 278.342 _chem_comp.id KGM _chem_comp.mon_nstd_flag n _chem_comp.name 'heptyl alpha-D-mannopyranoside' _chem_comp.type d-saccharide _chem_comp.pdbx_synonyms 'Heptyl Alpha-D-mannopyrannoside;heptyl alpha-D-mannoside;heptyl D-mannoside;heptyl mannoside' # 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 C13 C12 KGM sing 173 n n C12 C11 KGM sing 174 n n C11 C10 KGM sing 175 n n C10 C9 KGM sing 176 n n C9 C8 KGM sing 177 n n C8 C7 KGM sing 178 n n C7 O1 KGM sing 179 n n O1 C1 KGM sing 180 n n C1 C2 KGM sing 181 n n C1 O5 KGM sing 182 n n C2 O2 KGM sing 183 n n C2 C3 KGM sing 184 n n C3 O3 KGM sing 185 n n C3 C4 KGM sing 186 n n C4 O4 KGM sing 187 n n C4 C5 KGM sing 188 n n C5 O5 KGM sing 189 n n C5 C6 KGM sing 190 n n C6 O6 KGM sing 191 n n C13 H131 KGM sing 192 n n C13 H132 KGM sing 193 n n C13 H133 KGM sing 194 n n C12 H121 KGM sing 195 n n C12 H122 KGM sing 196 n n C11 H111 KGM sing 197 n n C11 H112 KGM sing 198 n n C10 H101 KGM sing 199 n n C10 H102 KGM sing 200 n n C9 H91C KGM sing 201 n n C9 H92C KGM sing 202 n n C8 H81C KGM sing 203 n n C8 H82C KGM sing 204 n n C7 H71C KGM sing 205 n n C7 H72C KGM sing 206 n n C1 H1 KGM sing 207 n n C2 H2 KGM sing 208 n n O2 HO2 KGM sing 209 n n C3 H3 KGM sing 210 n n O3 HO3 KGM sing 211 n n C4 H4 KGM sing 212 n n O4 HO4 KGM sing 213 n n C5 H5 KGM sing 214 n n C6 H61 KGM sing 215 n n C6 H62 KGM sing 216 n n O6 HO6 KGM sing 217 n n # _atom_sites.entry_id 4XOB _atom_sites.fract_transf_matrix[1][1] 0.010585 _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] 0.006797 _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] 0.003987 _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 I 3 KGM A 1 301 500 KGM DRG . J 4 SO4 A 1 302 1 SO4 SO4 . K 3 KGM C 1 301 500 KGM DRG . L 4 SO4 C 1 302 1 SO4 SO4 . M 3 KGM E 1 500 500 KGM DRG . N 3 KGM G 1 501 501 KGM DRG . O 5 HOH A 1 401 59 HOH HOH . O 5 HOH A 2 402 5 HOH HOH . O 5 HOH A 3 403 51 HOH HOH . O 5 HOH A 4 404 8 HOH HOH . O 5 HOH A 5 405 58 HOH HOH . O 5 HOH A 6 406 11 HOH HOH . O 5 HOH A 7 407 6 HOH HOH . O 5 HOH A 8 408 88 HOH HOH . O 5 HOH A 9 409 57 HOH HOH . O 5 HOH A 10 410 87 HOH HOH . O 5 HOH A 11 411 70 HOH HOH . O 5 HOH A 12 412 50 HOH HOH . O 5 HOH A 13 413 52 HOH HOH . O 5 HOH A 14 414 3 HOH HOH . O 5 HOH A 15 415 4 HOH HOH . O 5 HOH A 16 416 10 HOH HOH . O 5 HOH A 17 417 12 HOH HOH . O 5 HOH A 18 418 13 HOH HOH . O 5 HOH A 19 419 22 HOH HOH . O 5 HOH A 20 420 23 HOH HOH . O 5 HOH A 21 421 24 HOH HOH . O 5 HOH A 22 422 25 HOH HOH . O 5 HOH A 23 423 26 HOH HOH . O 5 HOH A 24 424 28 HOH HOH . O 5 HOH A 25 425 36 HOH HOH . O 5 HOH A 26 426 37 HOH HOH . O 5 HOH A 27 427 38 HOH HOH . O 5 HOH A 28 428 41 HOH HOH . O 5 HOH A 29 429 42 HOH HOH . O 5 HOH A 30 430 44 HOH HOH . O 5 HOH A 31 431 45 HOH HOH . O 5 HOH A 32 432 46 HOH HOH . O 5 HOH A 33 433 53 HOH HOH . O 5 HOH A 34 434 60 HOH HOH . O 5 HOH A 35 435 71 HOH HOH . O 5 HOH A 36 436 72 HOH HOH . O 5 HOH A 37 437 73 HOH HOH . O 5 HOH A 38 438 74 HOH HOH . O 5 HOH A 39 439 75 HOH HOH . O 5 HOH A 40 440 76 HOH HOH . O 5 HOH A 41 441 77 HOH HOH . O 5 HOH A 42 442 78 HOH HOH . O 5 HOH A 43 443 79 HOH HOH . O 5 HOH A 44 444 80 HOH HOH . O 5 HOH A 45 445 89 HOH HOH . O 5 HOH A 46 446 90 HOH HOH . O 5 HOH A 47 447 95 HOH HOH . O 5 HOH A 48 448 96 HOH HOH . O 5 HOH A 49 449 100 HOH HOH . O 5 HOH A 50 450 114 HOH HOH . O 5 HOH A 51 451 115 HOH HOH . P 5 HOH B 1 101 43 HOH HOH . P 5 HOH B 2 102 94 HOH HOH . Q 5 HOH C 1 401 9 HOH HOH . Q 5 HOH C 2 402 49 HOH HOH . Q 5 HOH C 3 403 81 HOH HOH . Q 5 HOH C 4 404 113 HOH HOH . Q 5 HOH C 5 405 85 HOH HOH . Q 5 HOH C 6 406 62 HOH HOH . Q 5 HOH C 7 407 1 HOH HOH . Q 5 HOH C 8 408 7 HOH HOH . Q 5 HOH C 9 409 14 HOH HOH . Q 5 HOH C 10 410 15 HOH HOH . Q 5 HOH C 11 411 18 HOH HOH . Q 5 HOH C 12 412 19 HOH HOH . Q 5 HOH C 13 413 20 HOH HOH . Q 5 HOH C 14 414 21 HOH HOH . Q 5 HOH C 15 415 35 HOH HOH . Q 5 HOH C 16 416 47 HOH HOH . Q 5 HOH C 17 417 48 HOH HOH . Q 5 HOH C 18 418 54 HOH HOH . Q 5 HOH C 19 419 55 HOH HOH . Q 5 HOH C 20 420 56 HOH HOH . Q 5 HOH C 21 421 61 HOH HOH . Q 5 HOH C 22 422 63 HOH HOH . Q 5 HOH C 23 423 82 HOH HOH . Q 5 HOH C 24 424 83 HOH HOH . Q 5 HOH C 25 425 84 HOH HOH . Q 5 HOH C 26 426 92 HOH HOH . Q 5 HOH C 27 427 93 HOH HOH . Q 5 HOH C 28 428 97 HOH HOH . Q 5 HOH C 29 429 101 HOH HOH . Q 5 HOH C 30 430 103 HOH HOH . Q 5 HOH C 31 431 109 HOH HOH . Q 5 HOH C 32 432 110 HOH HOH . Q 5 HOH C 33 433 111 HOH HOH . Q 5 HOH C 34 434 112 HOH HOH . R 5 HOH E 1 601 16 HOH HOH . R 5 HOH E 2 602 67 HOH HOH . R 5 HOH E 3 603 107 HOH HOH . R 5 HOH E 4 604 2 HOH HOH . R 5 HOH E 5 605 17 HOH HOH . R 5 HOH E 6 606 31 HOH HOH . R 5 HOH E 7 607 32 HOH HOH . R 5 HOH E 8 608 33 HOH HOH . R 5 HOH E 9 609 34 HOH HOH . R 5 HOH E 10 610 91 HOH HOH . R 5 HOH E 11 611 98 HOH HOH . R 5 HOH E 12 612 99 HOH HOH . R 5 HOH E 13 613 105 HOH HOH . R 5 HOH E 14 614 106 HOH HOH . R 5 HOH E 15 615 108 HOH HOH . R 5 HOH E 16 616 116 HOH HOH . R 5 HOH E 17 617 119 HOH HOH . S 5 HOH G 1 601 66 HOH HOH . S 5 HOH G 2 602 104 HOH HOH . S 5 HOH G 3 603 27 HOH HOH . S 5 HOH G 4 604 29 HOH HOH . S 5 HOH G 5 605 30 HOH HOH . S 5 HOH G 6 606 39 HOH HOH . S 5 HOH G 7 607 40 HOH HOH . S 5 HOH G 8 608 64 HOH HOH . S 5 HOH G 9 609 65 HOH HOH . S 5 HOH G 10 610 68 HOH HOH . S 5 HOH G 11 611 69 HOH HOH . S 5 HOH G 12 612 102 HOH HOH . S 5 HOH G 13 613 117 HOH HOH . S 5 HOH G 14 614 118 HOH HOH . T 5 HOH H 1 101 86 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 O O6 KGM . . . M 3 -27.855 2.288 41.399 1 41.49 ? O6 KGM 500 E 1 HETATM 2 C C6 KGM . . . M 3 -28.056 2.215 40.004 1 33.97 ? C6 KGM 500 E 1 HETATM 3 C C5 KGM . . . M 3 -29.476 1.794 39.681 1 28.97 ? C5 KGM 500 E 1 HETATM 4 C C10 KGM . . . M 3 -31.028 -2.852 36.426 1 33.09 ? C10 KGM 500 E 1 HETATM 5 O O5 KGM . . . M 3 -30.032 1.149 40.785 1 31.22 ? O5 KGM 500 E 1 HETATM 6 C C4 KGM . . . M 3 -30.319 3.012 39.333 1 27.18 ? C4 KGM 500 E 1 HETATM 7 O O4 KGM . . . M 3 -29.832 3.608 38.171 1 29.54 ? O4 KGM 500 E 1 HETATM 8 C C3 KGM . . . M 3 -31.77 2.582 39.12 1 29.74 ? C3 KGM 500 E 1 HETATM 9 O O3 KGM . . . M 3 -32.573 3.706 38.913 1 34.69 ? O3 KGM 500 E 1 HETATM 10 C C2 KGM . . . M 3 -32.238 1.887 40.376 1 28.71 ? C2 KGM 500 E 1 HETATM 11 O O2 KGM . . . M 3 -32.181 2.813 41.431 1 25.94 ? O2 KGM 500 E 1 HETATM 12 C C1 KGM . . . M 3 -31.339 0.72 40.677 1 30.86 ? C1 KGM 500 E 1 HETATM 13 O O1 KGM . . . M 3 -31.446 -0.202 39.611 1 31.68 ? O1 KGM 500 E 1 HETATM 14 C C7 KGM . . . M 3 -31.049 -1.501 39.968 1 31.21 ? C7 KGM 500 E 1 HETATM 15 C C8 KGM . . . M 3 -30.516 -2.181 38.728 1 30.08 ? C8 KGM 500 E 1 HETATM 16 C C9 KGM . . . M 3 -31.636 -2.416 37.74 1 29.01 ? C9 KGM 500 E 1 HETATM 17 C C13 KGM . . . M 3 -31.857 -6.187 34.922 1 31.41 ? C13 KGM 500 E 1 HETATM 18 C C12 KGM . . . M 3 -31.543 -5.289 36.105 1 33.08 ? C12 KGM 500 E 1 HETATM 19 C C11 KGM . . . M 3 -31.949 -3.863 35.773 1 35.79 ? C11 KGM 500 E 1 HETATM 20 H H131 KGM . . . M 3 -31.368 -7.031 35.013 1 37.69 ? H131 KGM 500 E 1 HETATM 21 H H132 KGM . . . M 3 -31.587 -5.741 34.092 1 37.69 ? H132 KGM 500 E 1 HETATM 22 H H133 KGM . . . M 3 -32.82 -6.37 34.896 1 37.69 ? H133 KGM 500 E 1 HETATM 23 H H121 KGM . . . M 3 -32.036 -5.596 36.893 1 39.69 ? H121 KGM 500 E 1 HETATM 24 H H122 KGM . . . M 3 -30.583 -5.32 36.289 1 39.69 ? H122 KGM 500 E 1 HETATM 25 H H111 KGM . . . M 3 -32.867 -3.708 36.074 1 42.95 ? H111 KGM 500 E 1 HETATM 26 H H112 KGM . . . M 3 -31.906 -3.745 34.804 1 42.95 ? H112 KGM 500 E 1 HETATM 27 H H101 KGM . . . M 3 -30.925 -2.075 35.841 1 39.71 ? H101 KGM 500 E 1 HETATM 28 H H102 KGM . . . M 3 -30.154 -3.261 36.585 1 39.71 ? H102 KGM 500 E 1 HETATM 29 H H91C KGM . . . M 3 -32.222 -3.122 38.077 1 34.81 ? H91C KGM 500 E 1 HETATM 30 H H92C KGM . . . M 3 -32.15 -1.593 37.615 1 34.81 ? H92C KGM 500 E 1 HETATM 31 H H81C KGM . . . M 3 -29.836 -1.614 38.313 1 36.09 ? H81C KGM 500 E 1 HETATM 32 H H82C KGM . . . M 3 -30.115 -3.038 38.977 1 36.09 ? H82C KGM 500 E 1 HETATM 33 H H71C KGM . . . M 3 -30.348 -1.462 40.652 1 37.46 ? H71C KGM 500 E 1 HETATM 34 H H72C KGM . . . M 3 -31.82 -1.998 40.312 1 37.46 ? H72C KGM 500 E 1 HETATM 35 H H1 KGM . . . M 3 -31.618 0.294 41.513 1 37.03 ? H1 KGM 500 E 1 HETATM 36 H H2 KGM . . . M 3 -33.158 1.575 40.259 1 34.46 ? H2 KGM 500 E 1 HETATM 37 H HO2 KGM . . . M 3 -32.713 3.502 41.249 1 31.13 ? HO2 KGM 500 E 1 HETATM 38 H H3 KGM . . . M 3 -31.834 1.976 38.356 1 35.69 ? H3 KGM 500 E 1 HETATM 39 H HO3 KGM . . . M 3 -32.202 4.225 38.294 1 41.63 ? HO3 KGM 500 E 1 HETATM 40 H H4 KGM . . . M 3 -30.276 3.655 40.069 1 32.62 ? H4 KGM 500 E 1 HETATM 41 H HO4 KGM . . . M 3 -29.295 4.283 38.386 1 35.45 ? HO4 KGM 500 E 1 HETATM 42 H H5 KGM . . . M 3 -29.465 1.18 38.919 1 34.76 ? H5 KGM 500 E 1 HETATM 43 H H61 KGM . . . M 3 -27.883 3.095 39.609 1 40.76 ? H61 KGM 500 E 1 HETATM 44 H H62 KGM . . . M 3 -27.432 1.563 39.623 1 40.76 ? H62 KGM 500 E 1 HETATM 45 H HO6 KGM . . . M 3 -28.239 1.588 41.791 1 49.79 ? HO6 KGM 500 E 1 # _model_server_stats.io_time_ms 28 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 38 _model_server_stats.query_time_ms 511 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 45 #