data_4YE4 # _model_server_result.job_id OJfJUelhaCSpaLxCkCWneA _model_server_result.datetime_utc '2024-11-01 10:39:30' _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 4ye4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":503}' # _entry.id 4YE4 # _exptl.entry_id 4YE4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 8 _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 4YE4 _cell.length_a 87.712 _cell.length_b 99.037 _cell.length_c 180.426 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4YE4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _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 ? 4 D N N ? 4 E N N ? 4 F N N ? 4 G N N ? 4 H N N ? 4 I N N ? 4 J N N ? 4 K 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 76 G CYS 119 1_555 A SG CYS 89 G CYS 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf2 A SG CYS 102 G CYS 218 1_555 A SG CYS 131 G CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf3 A SG CYS 112 G CYS 228 1_555 A SG CYS 123 G CYS 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf4 A SG CYS 180 G CYS 296 1_555 A SG CYS 199 G CYS 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf5 A SG CYS 245 G CYS 378 1_555 A SG CYS 307 G CYS 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf6 A SG CYS 252 G CYS 385 1_555 A SG CYS 280 G CYS 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf7 B SG CYS 22 H CYS 22 1_555 B SG CYS 95 H CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? disulf ? disulf8 B SG CYS 154 H CYS 154 1_555 B SG CYS 210 H CYS 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf9 C SG CYS 23 L CYS 23 1_555 C SG CYS 95 L CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf10 C SG CYS 141 L CYS 141 1_555 C SG CYS 201 L CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale1 A ND2 ASN 118 G ASN 234 1_555 D C1 NAG . G NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.428 ? covale ? covale2 A ND2 ASN 146 G ASN 262 1_555 E C1 NAG . G NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale3 A ND2 ASN 160 G ASN 276 1_555 F C1 NAG . G NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale4 A ND2 ASN 173 G ASN 289 1_555 G C1 NAG . G NAG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale5 A ND2 ASN 179 G ASN 295 1_555 H C1 NAG . G NAG 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale6 A ND2 ASN 253 G ASN 386 1_555 I C1 NAG . G NAG 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale7 A ND2 ASN 259 G ASN 392 1_555 J C1 NAG . G NAG 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.415 ? covale ? covale8 A ND2 ASN 310 G ASN 448 1_555 K C1 NAG . G NAG 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? # _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_ _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 4YE4 _atom_sites.fract_transf_matrix[1][1] 0.011401 _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] 0.010097 _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] 0.005542 _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 D 4 NAG G 1 501 734 NAG NAG . E 4 NAG G 1 502 762 NAG NAG . F 4 NAG G 1 503 776 NAG NAG . G 4 NAG G 1 504 789 NAG NAG . H 4 NAG G 1 505 795 NAG NAG . I 4 NAG G 1 506 886 NAG NAG . J 4 NAG G 1 507 892 NAG NAG . K 4 NAG G 1 508 948 NAG NAG . L 5 HOH G 1 601 17 HOH HOH . L 5 HOH G 2 602 18 HOH HOH . L 5 HOH G 3 603 2 HOH HOH . L 5 HOH G 4 604 5 HOH HOH . L 5 HOH G 5 605 6 HOH HOH . L 5 HOH G 6 606 16 HOH HOH . L 5 HOH G 7 607 25 HOH HOH . L 5 HOH G 8 608 26 HOH HOH . L 5 HOH G 9 609 27 HOH HOH . M 5 HOH H 1 301 24 HOH HOH . M 5 HOH H 2 302 1 HOH HOH . M 5 HOH H 3 303 3 HOH HOH . M 5 HOH H 4 304 4 HOH HOH . M 5 HOH H 5 305 7 HOH HOH . M 5 HOH H 6 306 10 HOH HOH . M 5 HOH H 7 307 12 HOH HOH . M 5 HOH H 8 308 15 HOH HOH . M 5 HOH H 9 309 21 HOH HOH . M 5 HOH H 10 310 23 HOH HOH . N 5 HOH L 1 301 9 HOH HOH . N 5 HOH L 2 302 8 HOH HOH . N 5 HOH L 3 303 11 HOH HOH . N 5 HOH L 4 304 13 HOH HOH . N 5 HOH L 5 305 14 HOH HOH . N 5 HOH L 6 306 19 HOH HOH . N 5 HOH L 7 307 20 HOH HOH . N 5 HOH L 8 308 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 NAG . . . F 4 -35.883 21.869 -1.972 1 72.9 ? C1 NAG 503 G 1 HETATM 2 C C2 NAG . . . F 4 -37.162 21.167 -2.457 1 82.16 ? C2 NAG 503 G 1 HETATM 3 C C3 NAG . . . F 4 -37.778 20.323 -1.342 1 88.86 ? C3 NAG 503 G 1 HETATM 4 C C4 NAG . . . F 4 -36.745 19.37 -0.764 1 91.24 ? C4 NAG 503 G 1 HETATM 5 C C5 NAG . . . F 4 -35.553 20.173 -0.268 1 91.04 ? C5 NAG 503 G 1 HETATM 6 C C6 NAG . . . F 4 -34.437 19.299 0.245 1 94.6 ? C6 NAG 503 G 1 HETATM 7 C C7 NAG . . . F 4 -38.584 22.132 -4.208 1 79.92 ? C7 NAG 503 G 1 HETATM 8 C C8 NAG . . . F 4 -39.588 23.192 -4.543 1 78.69 ? C8 NAG 503 G 1 HETATM 9 N N2 NAG . . . F 4 -38.131 22.132 -2.951 1 80.29 ? N2 NAG 503 G 1 HETATM 10 O O3 NAG . . . F 4 -38.87 19.581 -1.87 1 91.53 ? O3 NAG 503 G 1 HETATM 11 O O4 NAG . . . F 4 -37.303 18.624 0.312 1 92 ? O4 NAG 503 G 1 HETATM 12 O O5 NAG . . . F 4 -35.007 20.919 -1.363 1 84.21 ? O5 NAG 503 G 1 HETATM 13 O O6 NAG . . . F 4 -34.115 18.28 -0.693 1 95.56 ? O6 NAG 503 G 1 HETATM 14 O O7 NAG . . . F 4 -38.196 21.316 -5.039 1 83.61 ? O7 NAG 503 G 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 14 #