data_6H16 # _model_server_result.job_id p-QwRWlVg-ShfwyjO1M_hw _model_server_result.datetime_utc '2024-11-04 22:31:43' _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 6h16 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":1304}' # _entry.id 6H16 # _exptl.entry_id 6H16 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 1 _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 6H16 _cell.length_a 92.795 _cell.length_b 105.954 _cell.length_c 164.191 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6H16 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I _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 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id G _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 3 oligosaccharide 4 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 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 4 ? 4 3 2 BMA NAG C1 O1 . O4 HO4 . sing 5 ? 4 4 3 MAN BMA C1 O1 . O3 HO3 . 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 C NAG 1 C 1 NAG A 1547 NAG 3 n C NAG 2 C 2 NAG A 1548 NAG 3 n C BMA 3 C 3 BMA A 1549 BMA 3 n D NAG 1 D 1 NAG A 2550 NAG 3 n D NAG 2 D 2 NAG A 2551 NAG 3 n D BMA 3 D 3 BMA A 2552 BMA 3 n E NAG 1 E 1 NAG A 3051 NAG 3 n E NAG 2 E 2 NAG A 3052 NAG 3 n E BMA 3 E 3 BMA A 3053 BMA 4 n F NAG 1 F 1 NAG A 3552 NAG 4 n F NAG 2 F 2 NAG A 3553 NAG 4 n F BMA 3 F 3 BMA A 3554 BMA 4 n F MAN 4 F 4 MAN A 3555 MAN # 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 264 A CYS 893 1_555 A SG CYS 275 A CYS 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 271 A CYS 900 1_555 A SG CYS 285 A CYS 914 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf3 A SG CYS 287 A CYS 916 1_555 A SG CYS 300 A CYS 929 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 A SG CYS 578 A CYS 1207 1_555 A SG CYS 589 A CYS 1218 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 A SG CYS 585 A CYS 1214 1_555 A SG CYS 599 A CYS 1228 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf6 A SG CYS 601 A CYS 1230 1_555 A SG CYS 614 A CYS 1243 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf7 B SG CYS 22 B CYS 23 1_555 B SG CYS 96 B CYS 97 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? covale ? covale1 A ND2 ASN 63 A ASN 692 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale2 A ND2 ASN 230 A ASN 859 1_555 G C1 NAG . A NAG 1304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale3 A ND2 ASN 236 A ASN 865 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale4 A ND2 ASN 297 A ASN 926 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale5 A ND2 ASN 410 A ASN 1039 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale6 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale7 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale8 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale9 D O4 NAG . D NAG 2 1_555 D C1 BMA . D BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale10 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale11 E O4 NAG . E NAG 2 1_555 E C1 BMA . E BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale12 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale13 F O4 NAG . F NAG 2 1_555 F C1 BMA . F BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale14 F O3 BMA . F BMA 3 1_555 F C1 MAN . F MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? metalc ? metalc1 A O LEU 478 A LEU 1107 1_555 H CA CA . A CA 1315 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.158 ? metalc ? metalc2 H CA CA . A CA 1315 1_555 I O HOH . A HOH 1402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.918 ? metalc ? metalc3 H CA CA . A CA 1315 1_555 I O HOH . A HOH 1403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.477 ? metalc ? metalc4 H CA CA . A CA 1315 1_555 I O HOH . A HOH 1404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.16 ? metalc ? metalc5 H CA CA . A CA 1315 1_555 I O HOH . A HOH 1407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.623 ? metalc ? metalc6 H CA CA . A CA 1315 1_555 I O HOH . A HOH 1414 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.693 ? metalc ? metalc7 H CA CA . A CA 1315 1_555 I O HOH . A HOH 1415 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.652 ? # _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 285 n n C1 O1 NAG sing 286 n n C1 O5 NAG sing 287 n n C1 H1 NAG sing 288 n n C2 C3 NAG sing 289 n n C2 N2 NAG sing 290 n n C2 H2 NAG sing 291 n n C3 C4 NAG sing 292 n n C3 O3 NAG sing 293 n n C3 H3 NAG sing 294 n n C4 C5 NAG sing 295 n n C4 O4 NAG sing 296 n n C4 H4 NAG sing 297 n n C5 C6 NAG sing 298 n n C5 O5 NAG sing 299 n n C5 H5 NAG sing 300 n n C6 O6 NAG sing 301 n n C6 H61 NAG sing 302 n n C6 H62 NAG sing 303 n n C7 C8 NAG sing 304 n n C7 N2 NAG sing 305 n n C7 O7 NAG doub 306 n n C8 H81 NAG sing 307 n n C8 H82 NAG sing 308 n n C8 H83 NAG sing 309 n n N2 HN2 NAG sing 310 n n O1 HO1 NAG sing 311 n n O3 HO3 NAG sing 312 n n O4 HO4 NAG sing 313 n n O6 HO6 NAG sing 314 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 6H16 _atom_sites.fract_transf_matrix[1][1] 0.010776 _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] 0.009438 _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] 0.00609 _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 G 5 NAG A 1 1304 2049 NAG NAG . H 6 CA A 1 1315 1360 CA CA . I 7 HOH A 1 1401 2056 HOH HOH . I 7 HOH A 2 1402 2280 HOH HOH . I 7 HOH A 3 1403 2253 HOH HOH . I 7 HOH A 4 1404 2281 HOH HOH . I 7 HOH A 5 1405 2121 HOH HOH . I 7 HOH A 6 1406 2147 HOH HOH . I 7 HOH A 7 1407 2283 HOH HOH . I 7 HOH A 8 1408 2202 HOH HOH . I 7 HOH A 9 1409 2069 HOH HOH . I 7 HOH A 10 1410 2097 HOH HOH . I 7 HOH A 11 1411 2075 HOH HOH . I 7 HOH A 12 1412 2437 HOH HOH . I 7 HOH A 13 1413 1 HOH HOH . I 7 HOH A 14 1414 2252 HOH HOH . I 7 HOH A 15 1415 2342 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 . . . G 5 -23.736 -37.268 -18.456 1 97.7 ? C1 NAG 1304 A 1 HETATM 2 C C2 NAG . . . G 5 -25.032 -37.649 -19.175 1 123.95 ? C2 NAG 1304 A 1 HETATM 3 C C3 NAG . . . G 5 -25.336 -39.133 -18.97 1 140.3 ? C3 NAG 1304 A 1 HETATM 4 C C4 NAG . . . G 5 -24.14 -39.984 -19.376 1 150.76 ? C4 NAG 1304 A 1 HETATM 5 C C5 NAG . . . G 5 -22.888 -39.512 -18.641 1 143.11 ? C5 NAG 1304 A 1 HETATM 6 C C6 NAG . . . G 5 -21.636 -40.235 -19.081 1 137.75 ? C6 NAG 1304 A 1 HETATM 7 C C7 NAG . . . G 5 -26.497 -35.682 -19.302 1 121.7 ? C7 NAG 1304 A 1 HETATM 8 C C8 NAG . . . G 5 -27.673 -34.972 -18.701 1 100.48 ? C8 NAG 1304 A 1 HETATM 9 N N2 NAG . . . G 5 -26.145 -36.833 -18.719 1 116.17 ? N2 NAG 1304 A 1 HETATM 10 O O3 NAG . . . G 5 -26.477 -39.499 -19.737 1 134.68 ? O3 NAG 1304 A 1 HETATM 11 O O4 NAG . . . G 5 -24.382 -41.35 -19.061 1 152.09 ? O4 NAG 1304 A 1 HETATM 12 O O5 NAG . . . G 5 -22.672 -38.118 -18.899 1 131.71 ? O5 NAG 1304 A 1 HETATM 13 O O6 NAG . . . G 5 -21.94 -41.496 -19.661 1 147.05 ? O6 NAG 1304 A 1 HETATM 14 O O7 NAG . . . G 5 -25.892 -35.233 -20.27 1 144.02 ? O7 NAG 1304 A 1 # _model_server_stats.io_time_ms 64 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 285 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 14 #