data_6MGP # _model_server_result.job_id NhR65kCDpOK8TGYMagK1DA _model_server_result.datetime_utc '2024-11-22 17:10:07' _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 6mgp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Q","auth_seq_id":205}' # _entry.id 6MGP # _exptl.entry_id 6MGP _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _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 6MGP _cell.length_a 102.013 _cell.length_b 229.378 _cell.length_c 114.9 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6MGP _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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,P,Q,R,S,T,U,V,W,X _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 L N N ? 5 M N N ? 5 Q N N ? 5 R N N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 3 2 1 FUC NAG C1 O1 . O3 HO3 . sing 2 ? 3 3 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 3 4 1 FUC NAG C1 O1 . O6 HO6 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 3 n G NAG 1 D 1 NAG X 201 NAG 3 n G FUC 2 D 2 FUC X 202 FUC 3 n G NAG 3 D 3 NAG X 203 NAG 3 n G FUC 4 D 4 FUC X 204 FUC 3 n H NAG 1 E 1 NAG Y 201 NAG 3 n H FUC 2 E 2 FUC Y 202 FUC 3 n H NAG 3 E 3 NAG Y 204 NAG 3 n H FUC 4 E 4 FUC Y 203 FUC 3 n I NAG 1 F 1 NAG Z 201 NAG 3 n I FUC 2 F 2 FUC Z 202 FUC 3 n I NAG 3 F 3 NAG Z 203 NAG 3 n I FUC 4 F 4 FUC Z 204 FUC # 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 D SG CYS 4 X CYS 28 1_555 D SG CYS 13 X CYS 37 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf2 D SG CYS 7 X CYS 31 1_555 D SG CYS 21 X CYS 45 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf3 D SG CYS 24 X CYS 48 1_555 D SG CYS 38 X CYS 62 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? disulf ? disulf4 D SG CYS 41 X CYS 65 1_555 D SG CYS 54 X CYS 78 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf5 D SG CYS 44 X CYS 68 1_555 D SG CYS 62 X CYS 86 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf6 D SG CYS 64 X CYS 88 1_555 D SG CYS 78 X CYS 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf7 D SG CYS 70 X CYS 94 1_555 D SG CYS 75 X CYS 99 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf8 D SG CYS 82 X CYS 106 1_555 D SG CYS 93 X CYS 117 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf9 D SG CYS 96 X CYS 120 1_555 D SG CYS 109 X CYS 133 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf10 D SG CYS 115 X CYS 139 1_555 D SG CYS 134 X CYS 158 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf11 E SG CYS 4 Y CYS 28 1_555 E SG CYS 13 Y CYS 37 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf12 E SG CYS 7 Y CYS 31 1_555 E SG CYS 21 Y CYS 45 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf13 E SG CYS 24 Y CYS 48 1_555 E SG CYS 38 Y CYS 62 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf14 E SG CYS 41 Y CYS 65 1_555 E SG CYS 54 Y CYS 78 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf15 E SG CYS 44 Y CYS 68 1_555 E SG CYS 62 Y CYS 86 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf16 E SG CYS 64 Y CYS 88 1_555 E SG CYS 78 Y CYS 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf17 E SG CYS 70 Y CYS 94 1_555 E SG CYS 75 Y CYS 99 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf18 E SG CYS 82 Y CYS 106 1_555 E SG CYS 93 Y CYS 117 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf19 E SG CYS 96 Y CYS 120 1_555 E SG CYS 109 Y CYS 133 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf20 E SG CYS 115 Y CYS 139 1_555 E SG CYS 134 Y CYS 158 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf21 F SG CYS 4 Z CYS 28 1_555 F SG CYS 13 Z CYS 37 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf22 F SG CYS 7 Z CYS 31 1_555 F SG CYS 21 Z CYS 45 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf23 F SG CYS 24 Z CYS 48 1_555 F SG CYS 38 Z CYS 62 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? disulf ? disulf24 F SG CYS 41 Z CYS 65 1_555 F SG CYS 54 Z CYS 78 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf25 F SG CYS 44 Z CYS 68 1_555 F SG CYS 62 Z CYS 86 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf26 F SG CYS 64 Z CYS 88 1_555 F SG CYS 78 Z CYS 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf27 F SG CYS 70 Z CYS 94 1_555 F SG CYS 75 Z CYS 99 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf28 F SG CYS 82 Z CYS 106 1_555 F SG CYS 93 Z CYS 117 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf29 F SG CYS 96 Z CYS 120 1_555 F SG CYS 109 Z CYS 133 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf30 F SG CYS 115 Z CYS 139 1_555 F SG CYS 134 Z CYS 158 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.997 ? covale ? covale1 D ND2 ASN 125 X ASN 149 1_555 G C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale2 E ND2 ASN 125 Y ASN 149 1_555 H C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale3 F ND2 ASN 125 Z ASN 149 1_555 I C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.423 ? covale ? covale4 G O3 NAG . D NAG 1 1_555 G C1 FUC . D FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale5 G O4 NAG . D NAG 1 1_555 G C1 NAG . D NAG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.46 ? covale ? covale6 G O6 NAG . D NAG 1 1_555 G C1 FUC . D FUC 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale7 H O3 NAG . E NAG 1 1_555 H C1 FUC . E FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale8 H O4 NAG . E NAG 1 1_555 H C1 NAG . E NAG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale9 H O6 NAG . E NAG 1 1_555 H C1 FUC . E FUC 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale10 I O3 NAG . F NAG 1 1_555 I C1 FUC . F FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale11 I O4 NAG . F NAG 1 1_555 I C1 NAG . F NAG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.47 ? covale ? covale12 I O6 NAG . F NAG 1 1_555 I C1 FUC . F FUC 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.48 ? # _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 158 n n C1 C2 GOL sing 159 n n C1 H11 GOL sing 160 n n C1 H12 GOL sing 161 n n O1 HO1 GOL sing 162 n n C2 O2 GOL sing 163 n n C2 C3 GOL sing 164 n n C2 H2 GOL sing 165 n n O2 HO2 GOL sing 166 n n C3 O3 GOL sing 167 n n C3 H31 GOL sing 168 n n C3 H32 GOL sing 169 n n O3 HO3 GOL sing 170 n n # _atom_sites.entry_id 6MGP _atom_sites.fract_transf_matrix[1][1] 0.009803 _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] 0.00436 _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] 0.008703 _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 J 4 ACT A 1 301 1 ACT ACT . K 4 ACT A 1 302 2 ACT ACT . L 5 GOL B 1 301 1 GOL GOL . M 5 GOL C 1 301 3 GOL GOL . N 4 ACT C 1 302 6 ACT ACT . O 4 ACT X 1 205 5 ACT ACT . P 4 ACT Y 1 205 4 ACT ACT . Q 5 GOL Z 1 205 1 GOL GOL . R 5 GOL Z 1 206 2 GOL GOL . S 6 HOH A 1 401 68 HOH HOH . S 6 HOH A 2 402 61 HOH HOH . S 6 HOH A 3 403 45 HOH HOH . S 6 HOH A 4 404 19 HOH HOH . S 6 HOH A 5 405 10 HOH HOH . S 6 HOH A 6 406 31 HOH HOH . S 6 HOH A 7 407 6 HOH HOH . S 6 HOH A 8 408 43 HOH HOH . S 6 HOH A 9 409 39 HOH HOH . S 6 HOH A 10 410 59 HOH HOH . S 6 HOH A 11 411 14 HOH HOH . S 6 HOH A 12 412 87 HOH HOH . S 6 HOH A 13 413 78 HOH HOH . S 6 HOH A 14 414 25 HOH HOH . T 6 HOH B 1 401 70 HOH HOH . T 6 HOH B 2 402 9 HOH HOH . T 6 HOH B 3 403 73 HOH HOH . T 6 HOH B 4 404 3 HOH HOH . T 6 HOH B 5 405 46 HOH HOH . T 6 HOH B 6 406 67 HOH HOH . T 6 HOH B 7 407 84 HOH HOH . T 6 HOH B 8 408 48 HOH HOH . T 6 HOH B 9 409 76 HOH HOH . T 6 HOH B 10 410 11 HOH HOH . T 6 HOH B 11 411 44 HOH HOH . T 6 HOH B 12 412 27 HOH HOH . T 6 HOH B 13 413 24 HOH HOH . T 6 HOH B 14 414 38 HOH HOH . T 6 HOH B 15 415 50 HOH HOH . T 6 HOH B 16 416 16 HOH HOH . T 6 HOH B 17 417 75 HOH HOH . T 6 HOH B 18 418 41 HOH HOH . T 6 HOH B 19 419 74 HOH HOH . T 6 HOH B 20 420 85 HOH HOH . U 6 HOH C 1 401 69 HOH HOH . U 6 HOH C 2 402 1 HOH HOH . U 6 HOH C 3 403 65 HOH HOH . U 6 HOH C 4 404 57 HOH HOH . U 6 HOH C 5 405 53 HOH HOH . U 6 HOH C 6 406 2 HOH HOH . U 6 HOH C 7 407 21 HOH HOH . U 6 HOH C 8 408 20 HOH HOH . U 6 HOH C 9 409 22 HOH HOH . U 6 HOH C 10 410 7 HOH HOH . U 6 HOH C 11 411 23 HOH HOH . U 6 HOH C 12 412 13 HOH HOH . U 6 HOH C 13 413 17 HOH HOH . U 6 HOH C 14 414 8 HOH HOH . V 6 HOH X 1 301 28 HOH HOH . V 6 HOH X 2 302 71 HOH HOH . V 6 HOH X 3 303 18 HOH HOH . V 6 HOH X 4 304 55 HOH HOH . V 6 HOH X 5 305 4 HOH HOH . V 6 HOH X 6 306 32 HOH HOH . V 6 HOH X 7 307 29 HOH HOH . V 6 HOH X 8 308 40 HOH HOH . V 6 HOH X 9 309 77 HOH HOH . V 6 HOH X 10 310 91 HOH HOH . W 6 HOH Y 1 301 66 HOH HOH . W 6 HOH Y 2 302 56 HOH HOH . W 6 HOH Y 3 303 58 HOH HOH . W 6 HOH Y 4 304 42 HOH HOH . W 6 HOH Y 5 305 86 HOH HOH . W 6 HOH Y 6 306 47 HOH HOH . W 6 HOH Y 7 307 37 HOH HOH . W 6 HOH Y 8 308 36 HOH HOH . W 6 HOH Y 9 309 80 HOH HOH . W 6 HOH Y 10 310 5 HOH HOH . W 6 HOH Y 11 311 35 HOH HOH . W 6 HOH Y 12 312 26 HOH HOH . W 6 HOH Y 13 313 79 HOH HOH . W 6 HOH Y 14 314 51 HOH HOH . W 6 HOH Y 15 315 72 HOH HOH . W 6 HOH Y 16 316 90 HOH HOH . X 6 HOH Z 1 301 34 HOH HOH . X 6 HOH Z 2 302 15 HOH HOH . X 6 HOH Z 3 303 12 HOH HOH . X 6 HOH Z 4 304 62 HOH HOH . X 6 HOH Z 5 305 49 HOH HOH . X 6 HOH Z 6 306 64 HOH HOH . X 6 HOH Z 7 307 30 HOH HOH . X 6 HOH Z 8 308 33 HOH HOH . X 6 HOH Z 9 309 63 HOH HOH . X 6 HOH Z 10 310 82 HOH HOH . X 6 HOH Z 11 311 89 HOH HOH . X 6 HOH Z 12 312 83 HOH HOH . X 6 HOH Z 13 313 52 HOH HOH . X 6 HOH Z 14 314 81 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 . . . Q 5 33.08 33.328 -22.132 1 96.31 ? C1 GOL 205 Z 1 HETATM 2 O O1 GOL . . . Q 5 33.317 32.286 -23.06 1 90.49 ? O1 GOL 205 Z 1 HETATM 3 C C2 GOL . . . Q 5 32.697 34.632 -22.836 1 98.27 ? C2 GOL 205 Z 1 HETATM 4 O O2 GOL . . . Q 5 31.425 35.068 -22.402 1 97.94 ? O2 GOL 205 Z 1 HETATM 5 C C3 GOL . . . Q 5 32.686 34.453 -24.352 1 97.94 ? C3 GOL 205 Z 1 HETATM 6 O O3 GOL . . . Q 5 33.977 34.677 -24.876 1 97.16 ? O3 GOL 205 Z 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 293 _model_server_stats.encode_time_ms 14 _model_server_stats.element_count 6 #