data_7LFR # _model_server_result.job_id -xO296ssvOEZF2q6oSLe_A _model_server_result.datetime_utc '2024-11-26 18:05:20' _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 7lfr # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":601}' # _entry.id 7LFR # _exptl.entry_id 7LFR _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _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 90 _cell.angle_gamma 90 _cell.entry_id 7LFR _cell.length_a 77.593 _cell.length_b 87.206 _cell.length_c 198.013 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7LFR _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 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 ? tetrameric 4 author_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 PISA dimeric 2 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,I,J,K,L,M 1 1 A,C,E,F,G 2 1 B,D,H,I,J,K,L,M 3 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 ? 4 F N N ? 4 H N N ? 4 I N N ? 4 J N N ? 4 K N N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 3 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 BMA _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order 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 E NAG 1 F 1 NAG F 3203 NAG 3 n E BMA 2 F 2 BMA F 3204 BMA # 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 7 A CYS 7 1_555 A SG CYS 34 A CYS 34 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 133 A CYS 133 1_555 A SG CYS 163 A CYS 163 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf3 A SG CYS 166 A CYS 166 1_555 A SG CYS 175 A CYS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 A SG CYS 170 A CYS 170 1_555 A SG CYS 183 A CYS 183 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 A SG CYS 191 A CYS 191 1_555 A SG CYS 199 A CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf6 A SG CYS 195 A CYS 195 1_555 A SG CYS 207 A CYS 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf7 A SG CYS 208 A CYS 208 1_555 A SG CYS 216 A CYS 216 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf8 A SG CYS 212 A CYS 212 1_555 A SG CYS 224 A CYS 224 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf9 A SG CYS 227 A CYS 227 1_555 A SG CYS 236 A CYS 236 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf10 A SG CYS 240 A CYS 240 1_555 A SG CYS 267 A CYS 267 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf11 A SG CYS 271 A CYS 271 1_555 A SG CYS 283 A CYS 283 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf12 A SG CYS 287 A CYS 287 1_555 A SG CYS 302 A CYS 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf13 A SG CYS 305 A CYS 305 1_555 A SG CYS 309 A CYS 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf14 A SG CYS 313 A CYS 313 1_555 A SG CYS 338 A CYS 338 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf15 A SG CYS 446 A CYS 446 1_555 A SG CYS 475 A CYS 475 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf16 A SG CYS 482 A CYS 482 1_555 A SG CYS 491 A CYS 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf17 A SG CYS 486 A CYS 486 1_555 A SG CYS 499 A CYS 499 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf18 B SG CYS 7 B CYS 7 1_555 B SG CYS 34 B CYS 34 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf19 B SG CYS 133 B CYS 133 1_555 B SG CYS 163 B CYS 163 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf20 B SG CYS 166 B CYS 166 1_555 B SG CYS 175 B CYS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf21 B SG CYS 170 B CYS 170 1_555 B SG CYS 183 B CYS 183 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf22 B SG CYS 191 B CYS 191 1_555 B SG CYS 199 B CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf23 B SG CYS 195 B CYS 195 1_555 B SG CYS 207 B CYS 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf24 B SG CYS 208 B CYS 208 1_555 B SG CYS 216 B CYS 216 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf25 B SG CYS 212 B CYS 212 1_555 B SG CYS 224 B CYS 224 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf26 B SG CYS 227 B CYS 227 1_555 B SG CYS 236 B CYS 236 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf27 B SG CYS 240 B CYS 240 1_555 B SG CYS 267 B CYS 267 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf28 B SG CYS 271 B CYS 271 1_555 B SG CYS 283 B CYS 283 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf29 B SG CYS 287 B CYS 287 1_555 B SG CYS 302 B CYS 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf30 B SG CYS 305 B CYS 305 1_555 B SG CYS 309 B CYS 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf31 B SG CYS 313 B CYS 313 1_555 B SG CYS 338 B CYS 338 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf32 B SG CYS 446 B CYS 446 1_555 B SG CYS 475 B CYS 475 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf33 B SG CYS 482 B CYS 482 1_555 B SG CYS 491 B CYS 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf34 B SG CYS 486 B CYS 486 1_555 B SG CYS 499 B CYS 499 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf35 C SG CYS 6 C CYS 6 1_555 C SG CYS 19 C CYS 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf36 C SG CYS 14 C CYS 14 1_555 C SG CYS 30 C CYS 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf37 C SG CYS 32 C CYS 32 1_555 C SG CYS 41 C CYS 41 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf38 D SG CYS 6 D CYS 6 1_555 D SG CYS 19 D CYS 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf39 D SG CYS 14 D CYS 14 1_555 D SG CYS 30 D CYS 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf40 D SG CYS 32 D CYS 32 1_555 D SG CYS 41 D CYS 41 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? covale ? covale1 B ND2 ASN 32 B ASN 32 1_555 H C1 NAG . B NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale2 B ND2 ASN 151 B ASN 151 1_555 I C1 NAG . B NAG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale3 E O4 NAG . F NAG 1 1_555 E C1 BMA . F BMA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.485 ? # _chem_comp.formula 'C8 H15 N O6' _chem_comp.formula_weight 221.208 _chem_comp.id NAG _chem_comp.mon_nstd_flag . _chem_comp.name 2-acetamido-2-deoxy-beta-D-glucopyranose _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms N-acetyl-beta-D-glucosamine;2-acetamido-2-deoxy-beta-D-glucose;2-acetamido-2-deoxy-D-glucose;2-acetamido-2-deoxy-glucose;N-ACETYL-D-GLUCOSAMINE # 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 C2 NAG sing 283 n n C1 O1 NAG sing 284 n n C1 O5 NAG sing 285 n n C1 H1 NAG sing 286 n n C2 C3 NAG sing 287 n n C2 N2 NAG sing 288 n n C2 H2 NAG sing 289 n n C3 C4 NAG sing 290 n n C3 O3 NAG sing 291 n n C3 H3 NAG sing 292 n n C4 C5 NAG sing 293 n n C4 O4 NAG sing 294 n n C4 H4 NAG sing 295 n n C5 C6 NAG sing 296 n n C5 O5 NAG sing 297 n n C5 H5 NAG sing 298 n n C6 O6 NAG sing 299 n n C6 H61 NAG sing 300 n n C6 H62 NAG sing 301 n n C7 C8 NAG sing 302 n n C7 N2 NAG sing 303 n n C7 O7 NAG doub 304 n n C8 H81 NAG sing 305 n n C8 H82 NAG sing 306 n n C8 H83 NAG sing 307 n n N2 HN2 NAG sing 308 n n O1 HO1 NAG sing 309 n n O3 HO3 NAG sing 310 n n O4 HO4 NAG sing 311 n n O6 HO6 NAG sing 312 n n # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.identifier _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version NAG DGlcpNAcb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 NAG N-acetyl-b-D-glucopyranosamine 'COMMON NAME' GMML 1 NAG b-D-GlcpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 NAG GlcNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 7LFR _atom_sites.fract_transf_matrix[1][1] 0.012888 _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] 0.011467 _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] 0.00505 _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 4 NAG A 1 601 3202 NAG NAG . G 5 MAN A 1 602 3205 MAN MAN . H 4 NAG B 1 601 601 NAG NAG . I 4 NAG B 1 602 701 NAG NAG . J 4 NAG B 1 603 603 NAG NAG . K 4 NAG B 1 604 604 NAG NAG . L 6 BMA B 1 605 605 BMA BMA . M 5 MAN B 1 606 606 MAN MAN . # 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 NAG . . . F 4 30.987 73.251 -25.899 1 69.43 ? C1 NAG 601 A 1 HETATM 2 C C2 NAG . . . F 4 29.526 73.474 -26.232 1 80.57 ? C2 NAG 601 A 1 HETATM 3 C C3 NAG . . . F 4 28.837 74.207 -25.088 1 83.1 ? C3 NAG 601 A 1 HETATM 4 C C4 NAG . . . F 4 29.103 73.517 -23.757 1 76.57 ? C4 NAG 601 A 1 HETATM 5 C C5 NAG . . . F 4 30.579 73.171 -23.567 1 82.61 ? C5 NAG 601 A 1 HETATM 6 C C6 NAG . . . F 4 30.808 72.242 -22.397 1 92.46 ? C6 NAG 601 A 1 HETATM 7 C C7 NAG . . . F 4 28.236 74.279 -28.162 1 85.84 ? C7 NAG 601 A 1 HETATM 8 C C8 NAG . . . F 4 28.271 75.09 -29.421 1 83.74 ? C8 NAG 601 A 1 HETATM 9 N N2 NAG . . . F 4 29.38 74.215 -27.475 1 80.98 ? N2 NAG 601 A 1 HETATM 10 O O3 NAG . . . F 4 27.437 74.23 -25.333 1 81.53 ? O3 NAG 601 A 1 HETATM 11 O O4 NAG . . . F 4 28.702 74.374 -22.694 1 89.76 ? O4 NAG 601 A 1 HETATM 12 O O5 NAG . . . F 4 31.091 72.497 -24.724 1 84.24 ? O5 NAG 601 A 1 HETATM 13 O O6 NAG . . . F 4 29.984 71.087 -22.485 1 97.24 ? O6 NAG 601 A 1 HETATM 14 O O7 NAG . . . F 4 27.216 73.708 -27.786 1 95.6 ? O7 NAG 601 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 23 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 331 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 14 #