data_7WHU # _model_server_result.job_id Lk9fqZmCKWr3sm06frYwMQ _model_server_result.datetime_utc '2024-11-05 06:39:50' _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 7whu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"W","auth_seq_id":304}' # _entry.id 7WHU # _exptl.entry_id 7WHU _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 8 _entity.src_method man _entity.type non-polymer _entity.pdbx_description GLYCEROL _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 89.9 _cell.angle_gamma 90 _cell.entry_id 7WHU _cell.length_a 57.242 _cell.length_b 68.914 _cell.length_c 130.851 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7WHU _symmetry.cell_setting ? _symmetry.Int_Tables_number 3 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 2 1' # 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,H,J,K,Q,R,BA 1 1 B,E,L,M,S,CA 2 1 C,F,I,N,T,U,V,W,X,DA,FA 3 1 D,G,O,P,Y,Z,AA,EA,GA 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 ? 8 Q N N ? 8 S N N ? 8 V N N ? 8 W N N ? 8 X N N ? 8 Y N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 3 oligosaccharide 4 oligosaccharide 5 oligosaccharide 6 oligosaccharide 7 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 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 3 3 1 FUC NAG C1 O1 . O6 HO6 . sing 3 ? 4 2 1 FUC NAG C1 O1 . O6 HO6 . sing 4 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 5 ? 5 3 2 BMA NAG C1 O1 . O4 HO4 . sing 6 ? 5 4 1 FUC NAG C1 O1 . O6 HO6 . sing 7 ? 6 2 1 NAG NAG C1 O1 . O4 HO4 . sing 8 ? 7 2 1 FUC NAG C1 O1 . O3 HO3 . sing 9 ? 7 3 1 NAG NAG C1 O1 . O4 HO4 . 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 I NAG 1 P 1 NAG B 229 NAG 3 n I NAG 2 P 2 NAG B 230 NAG 3 n I FUC 3 P 3 FUC B 231 FUC 4 n J NAG 1 I 1 NAG D 226 NAG 4 n J FUC 2 I 2 FUC D 227 FUC 5 n K NAG 1 J 1 NAG D 228 NAG 5 n K NAG 2 J 2 NAG D 229 NAG 5 n K BMA 3 J 3 BMA D 232 BMA 5 n K FUC 4 J 4 FUC D 230 FUC 3 n L NAG 1 K 1 NAG A 226 NAG 3 n L NAG 2 K 2 NAG A 227 NAG 3 n L FUC 3 K 3 FUC A 228 FUC 6 n M NAG 1 L 1 NAG A 229 NAG 6 n M NAG 2 L 2 NAG A 230 NAG 7 n N NAG 1 M 1 NAG B 233 NAG 7 n N FUC 2 M 2 FUC B 235 FUC 7 n N NAG 3 M 3 NAG B 234 NAG 3 n O NAG 1 N 1 NAG C 226 NAG 3 n O NAG 2 N 2 NAG C 227 NAG 3 n O FUC 3 N 3 FUC C 228 FUC 3 n P NAG 1 O 1 NAG C 229 NAG 3 n P NAG 2 O 2 NAG C 230 NAG 3 n P FUC 3 O 3 FUC C 231 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 A SG CYS 55 D CYS 41 1_555 A SG CYS 71 D CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf2 A SG CYS 151 D CYS 132 1_555 A SG CYS 208 D CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf3 A SG CYS 181 D CYS 162 1_555 A SG CYS 187 D CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? disulf ? disulf4 A SG CYS 198 D CYS 177 1_555 A SG CYS 223 D CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf5 B SG CYS 55 A CYS 41 1_555 B SG CYS 71 A CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf6 B SG CYS 151 A CYS 132 1_555 B SG CYS 208 A CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf7 B SG CYS 181 A CYS 162 1_555 B SG CYS 187 A CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? disulf ? disulf8 B SG CYS 198 A CYS 177 1_555 B SG CYS 223 A CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? disulf ? disulf9 C SG CYS 55 B CYS 41 1_555 C SG CYS 71 B CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? disulf ? disulf10 C SG CYS 151 B CYS 132 1_555 C SG CYS 208 B CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf11 C SG CYS 181 B CYS 162 1_555 C SG CYS 187 B CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? disulf ? disulf12 C SG CYS 198 B CYS 177 1_555 C SG CYS 223 B CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf13 D SG CYS 55 C CYS 41 1_555 D SG CYS 71 C CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf14 D SG CYS 151 C CYS 132 1_555 D SG CYS 208 C CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf15 D SG CYS 181 C CYS 162 1_555 D SG CYS 187 C CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf16 D SG CYS 198 C CYS 177 1_555 D SG CYS 223 C CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? covale ? covale1 A ND2 ASN 124 D ASN 105 1_555 J C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale2 A ND2 ASN 173 D ASN 154 1_555 K C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale3 B ND2 ASN 124 A ASN 105 1_555 L C1 NAG . K NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.462 ? covale ? covale4 B ND2 ASN 173 A ASN 154 1_555 M C1 NAG . L NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale5 C ND2 ASN 124 B ASN 105 1_555 N C1 NAG . M NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.473 ? covale ? covale6 D ND2 ASN 124 C ASN 105 1_555 O C1 NAG . N NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale7 D ND2 ASN 173 C ASN 154 1_555 P C1 NAG . O NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale8 I O4 NAG . P NAG 1 1_555 I C1 NAG . P NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale9 I O6 NAG . P NAG 1 1_555 I C1 FUC . P FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale10 J O6 NAG . I NAG 1 1_555 J C1 FUC . I FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale11 K O4 NAG . J NAG 1 1_555 K C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale12 K O6 NAG . J NAG 1 1_555 K C1 FUC . J FUC 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale13 K O4 NAG . J NAG 2 1_555 K C1 BMA . J BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale14 L O4 NAG . K NAG 1 1_555 L C1 NAG . K NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale15 L O6 NAG . K NAG 1 1_555 L C1 FUC . K FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale16 M O4 NAG . L NAG 1 1_555 M C1 NAG . L NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale17 N O3 NAG . M NAG 1 1_555 N C1 FUC . M FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale18 N O4 NAG . M NAG 1 1_555 N C1 NAG . M NAG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale19 O O4 NAG . N NAG 1 1_555 O C1 NAG . N NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.458 ? covale ? covale20 O O6 NAG . N NAG 1 1_555 O C1 FUC . N FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale21 P O4 NAG . O NAG 1 1_555 P C1 NAG . O NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale22 P O6 NAG . O NAG 1 1_555 P C1 FUC . O FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? # _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 176 n n C1 C2 GOL sing 177 n n C1 H11 GOL sing 178 n n C1 H12 GOL sing 179 n n O1 HO1 GOL sing 180 n n C2 O2 GOL sing 181 n n C2 C3 GOL sing 182 n n C2 H2 GOL sing 183 n n O2 HO2 GOL sing 184 n n C3 O3 GOL sing 185 n n C3 H31 GOL sing 186 n n C3 H32 GOL sing 187 n n O3 HO3 GOL sing 188 n n # _atom_sites.entry_id 7WHU _atom_sites.fract_transf_matrix[1][1] 0.01747 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] -0.000031 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014511 _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] 0.007642 _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 Q 8 GOL D 1 301 231 GOL GOL . R 9 SO4 D 1 302 3 SO4 SO4 . S 8 GOL A 1 301 231 GOL GOL . T 9 SO4 B 1 301 1 SO4 SO4 . U 9 SO4 B 1 302 6 SO4 SO4 . V 8 GOL B 1 303 1 GOL GOL . W 8 GOL B 1 304 2 GOL GOL . X 8 GOL B 1 305 232 GOL GOL . Y 8 GOL C 1 301 232 GOL GOL . Z 9 SO4 C 1 302 2 SO4 SO4 . AA 9 SO4 C 1 303 4 SO4 SO4 . BA 10 HOH D 1 401 19 HOH HOH . BA 10 HOH D 2 402 10 HOH HOH . CA 10 HOH A 1 401 14 HOH HOH . CA 10 HOH A 2 402 11 HOH HOH . CA 10 HOH A 3 403 25 HOH HOH . CA 10 HOH A 4 404 3 HOH HOH . CA 10 HOH A 5 405 18 HOH HOH . CA 10 HOH A 6 406 26 HOH HOH . CA 10 HOH A 7 407 13 HOH HOH . CA 10 HOH A 8 408 2 HOH HOH . CA 10 HOH A 9 409 12 HOH HOH . CA 10 HOH A 10 410 15 HOH HOH . CA 10 HOH A 11 411 1 HOH HOH . DA 10 HOH B 1 401 20 HOH HOH . DA 10 HOH B 2 402 9 HOH HOH . DA 10 HOH B 3 403 5 HOH HOH . DA 10 HOH B 4 404 6 HOH HOH . DA 10 HOH B 5 405 16 HOH HOH . DA 10 HOH B 6 406 4 HOH HOH . DA 10 HOH B 7 407 28 HOH HOH . DA 10 HOH B 8 408 7 HOH HOH . DA 10 HOH B 9 409 27 HOH HOH . DA 10 HOH B 10 410 17 HOH HOH . DA 10 HOH B 11 411 24 HOH HOH . EA 10 HOH C 1 401 21 HOH HOH . EA 10 HOH C 2 402 23 HOH HOH . FA 10 HOH F 1 101 8 HOH HOH . GA 10 HOH G 1 101 22 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 . . . W 8 -78.243 -35.48 8.06 1 15.46 ? C1 GOL 304 B 1 HETATM 2 O O1 GOL . . . W 8 -79.321 -34.917 8.671 1 12.63 ? O1 GOL 304 B 1 HETATM 3 C C2 GOL . . . W 8 -78.772 -36.085 6.752 1 13.44 ? C2 GOL 304 B 1 HETATM 4 O O2 GOL . . . W 8 -80.068 -36.521 6.86 1 12.49 ? O2 GOL 304 B 1 HETATM 5 C C3 GOL . . . W 8 -78.617 -34.991 5.686 1 15.77 ? C3 GOL 304 B 1 HETATM 6 O O3 GOL . . . W 8 -79.525 -33.981 5.985 1 15.02 ? O3 GOL 304 B 1 # _model_server_stats.io_time_ms 64 _model_server_stats.parse_time_ms 139 _model_server_stats.create_model_time_ms 166 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 6 #