data_6V13 # _model_server_result.job_id 22SodEf4hmT2u_EXe-09BA _model_server_result.datetime_utc '2024-11-04 22:48:43' _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 6v13 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":301}' # _entry.id 6V13 # _exptl.entry_id 6V13 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 7 _entity.src_method nat _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 5 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 92.425 _cell.angle_gamma 90 _cell.entry_id 6V13 _cell.length_a 150.457 _cell.length_b 56.766 _cell.length_c 136.253 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6V13 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall 'C 2y' _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details pentameric _pdbx_struct_assembly.oligomeric_count 5 _pdbx_struct_assembly.details author_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,P,Q,R _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 ? 7 H N N ? 7 I N N ? 7 K N N ? 7 L N N ? 7 M 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 107 A CYS 107 1_555 A SG CYS 163 A CYS 163 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf2 B SG CYS 15 B CYS 15 1_555 B SG CYS 79 B CYS 79 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf3 B SG CYS 117 B CYS 117 1_555 B SG CYS 173 B CYS 173 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf4 D SG CYS 23 D CYS 23 1_555 D SG CYS 90 D CYS 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? disulf ? disulf5 D SG CYS 135 D CYS 149 1_555 D SG CYS 185 D CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf6 D SG CYS 160 D CYS 174 1_555 E SG CYS 168 E CYS 183 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf7 E SG CYS 21 E CYS 23 1_555 E SG CYS 89 E CYS 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? disulf ? disulf8 E SG CYS 142 E CYS 157 1_555 E SG CYS 207 E CYS 222 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? covale ? covale1 A ND2 ASN 78 A ASN 78 1_555 F C1 NAG . A NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale2 A ND2 ASN 118 A ASN 118 1_555 G C1 NAG . A NAG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale3 B ND2 ASN 19 B ASN 19 1_555 J C1 NAG . B NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale4 C C ALA 5 C ALA 73 1_555 C N CIR 6 C CIR 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.376 ? covale ? covale5 C C CIR 6 C CIR 74 1_555 C N PRO 7 C PRO 75 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.311 ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # 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 C1 O1 GOL sing 153 n n C1 C2 GOL sing 154 n n C1 H11 GOL sing 155 n n C1 H12 GOL sing 156 n n O1 HO1 GOL sing 157 n n C2 O2 GOL sing 158 n n C2 C3 GOL sing 159 n n C2 H2 GOL sing 160 n n O2 HO2 GOL sing 161 n n C3 O3 GOL sing 162 n n C3 H31 GOL sing 163 n n C3 H32 GOL sing 164 n n O3 HO3 GOL sing 165 n n # _atom_sites.entry_id 6V13 _atom_sites.fract_transf_matrix[1][1] 0.006646 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000281 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017616 _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] 0.007346 _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 F 6 NAG A 1 201 181 NAG NAG . G 6 NAG A 1 202 182 NAG NAG . H 7 GOL A 1 203 201 GOL GOL . I 7 GOL A 1 204 301 GOL GOL . J 6 NAG B 1 201 302 NAG NAG . K 7 GOL B 1 202 202 GOL GOL . L 7 GOL C 1 300 300 GOL GOL . M 7 GOL D 1 301 315 GOL GOL . N 8 HOH A 1 301 59 HOH HOH . N 8 HOH A 2 302 70 HOH HOH . N 8 HOH A 3 303 54 HOH HOH . N 8 HOH A 4 304 69 HOH HOH . N 8 HOH A 5 305 68 HOH HOH . N 8 HOH A 6 306 39 HOH HOH . N 8 HOH A 7 307 35 HOH HOH . N 8 HOH A 8 308 40 HOH HOH . O 8 HOH B 1 301 20 HOH HOH . O 8 HOH B 2 302 37 HOH HOH . O 8 HOH B 3 303 53 HOH HOH . O 8 HOH B 4 304 19 HOH HOH . O 8 HOH B 5 305 49 HOH HOH . O 8 HOH B 6 306 72 HOH HOH . O 8 HOH B 7 307 74 HOH HOH . O 8 HOH B 8 308 38 HOH HOH . O 8 HOH B 9 309 79 HOH HOH . O 8 HOH B 10 310 21 HOH HOH . P 8 HOH C 1 401 52 HOH HOH . P 8 HOH C 2 402 75 HOH HOH . P 8 HOH C 3 403 36 HOH HOH . P 8 HOH C 4 404 48 HOH HOH . P 8 HOH C 5 405 60 HOH HOH . Q 8 HOH D 1 401 8 HOH HOH . Q 8 HOH D 2 402 1 HOH HOH . Q 8 HOH D 3 403 16 HOH HOH . Q 8 HOH D 4 404 11 HOH HOH . Q 8 HOH D 5 405 9 HOH HOH . Q 8 HOH D 6 406 15 HOH HOH . Q 8 HOH D 7 407 4 HOH HOH . Q 8 HOH D 8 408 67 HOH HOH . Q 8 HOH D 9 409 44 HOH HOH . Q 8 HOH D 10 410 17 HOH HOH . Q 8 HOH D 11 411 45 HOH HOH . Q 8 HOH D 12 412 34 HOH HOH . Q 8 HOH D 13 413 65 HOH HOH . Q 8 HOH D 14 414 30 HOH HOH . Q 8 HOH D 15 415 64 HOH HOH . Q 8 HOH D 16 416 51 HOH HOH . Q 8 HOH D 17 417 43 HOH HOH . Q 8 HOH D 18 418 42 HOH HOH . Q 8 HOH D 19 419 32 HOH HOH . Q 8 HOH D 20 420 33 HOH HOH . Q 8 HOH D 21 421 22 HOH HOH . Q 8 HOH D 22 422 55 HOH HOH . Q 8 HOH D 23 423 31 HOH HOH . R 8 HOH E 1 301 10 HOH HOH . R 8 HOH E 2 302 3 HOH HOH . R 8 HOH E 3 303 76 HOH HOH . R 8 HOH E 4 304 14 HOH HOH . R 8 HOH E 5 305 50 HOH HOH . R 8 HOH E 6 306 46 HOH HOH . R 8 HOH E 7 307 7 HOH HOH . R 8 HOH E 8 308 27 HOH HOH . R 8 HOH E 9 309 41 HOH HOH . R 8 HOH E 10 310 26 HOH HOH . R 8 HOH E 11 311 2 HOH HOH . R 8 HOH E 12 312 66 HOH HOH . R 8 HOH E 13 313 47 HOH HOH . R 8 HOH E 14 314 25 HOH HOH . R 8 HOH E 15 315 56 HOH HOH . R 8 HOH E 16 316 28 HOH HOH . R 8 HOH E 17 317 12 HOH HOH . R 8 HOH E 18 318 24 HOH HOH . R 8 HOH E 19 319 77 HOH HOH . R 8 HOH E 20 320 78 HOH HOH . R 8 HOH E 21 321 23 HOH HOH . R 8 HOH E 22 322 61 HOH HOH . R 8 HOH E 23 323 29 HOH HOH . R 8 HOH E 24 324 80 HOH HOH . R 8 HOH E 25 325 57 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 C1 GOL . . . M 7 1.765 -43.066 40.078 1 49.72 ? C1 GOL 301 D 1 HETATM 2 O O1 GOL . . . M 7 2.165 -43.983 39.092 1 62.71 ? O1 GOL 301 D 1 HETATM 3 C C2 GOL . . . M 7 0.494 -42.387 39.603 1 57.52 ? C2 GOL 301 D 1 HETATM 4 O O2 GOL . . . M 7 -0.595 -42.856 40.359 1 69.37 ? O2 GOL 301 D 1 HETATM 5 C C3 GOL . . . M 7 0.614 -40.883 39.779 1 62.09 ? C3 GOL 301 D 1 HETATM 6 O O3 GOL . . . M 7 -0.599 -40.287 39.378 1 71.29 ? O3 GOL 301 D 1 # _model_server_stats.io_time_ms 22 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 288 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 6 #