data_6U6T # _model_server_result.job_id VDnm42isYfMqrLdqMCPCrA _model_server_result.datetime_utc '2024-11-22 07:42:54' _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 6u6t # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":404}' # _entry.id 6U6T # _exptl.entry_id 6U6T _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 6U6T _cell.length_a 73.569 _cell.length_b 97.218 _cell.length_c 252.424 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6U6T _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 ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _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 H _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 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 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 2 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 3 2 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 2 n C NAG 1 C 1 NAG A 401 NAG 2 n C NAG 2 C 2 NAG A 402 NAG 2 n C BMA 3 C 3 BMA A 403 BMA 3 n D NAG 1 D 1 NAG A 501 NAG 3 n D FUC 2 D 2 FUC A 502 FUC 2 n E NAG 1 E 1 NAG B 401 NAG 2 n E NAG 2 E 2 NAG B 402 NAG 2 n E BMA 3 E 3 BMA B 403 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 28 A CYS 60 1_555 A SG CYS 86 A CYS 118 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf2 A SG CYS 128 A CYS 160 1_555 A SG CYS 171 A CYS 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf3 A SG CYS 213 A CYS 245 1_555 A SG CYS 265 A CYS 297 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf4 B SG CYS 28 B CYS 60 1_555 B SG CYS 86 B CYS 118 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 B SG CYS 128 B CYS 160 1_555 B SG CYS 171 B CYS 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf6 B SG CYS 213 B CYS 245 1_555 B SG CYS 265 B CYS 297 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 A ND2 ASN 41 A ASN 73 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.426 ? covale ? covale2 A ND2 ASN 123 A ASN 155 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.469 ? covale ? covale3 B ND2 ASN 41 B ASN 73 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale4 B ND2 ASN 123 B ASN 155 1_555 H C1 NAG . B NAG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.465 ? covale ? covale5 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.395 ? covale ? covale6 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.385 ? covale ? covale7 D O6 NAG . D NAG 1 1_555 D C1 FUC . D FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.401 ? covale ? covale8 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.398 ? covale ? covale9 E O4 NAG . E NAG 2 1_555 E C1 BMA . E BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.399 ? metalc ? metalc1 A OD1 ASP 111 A ASP 143 1_555 G CA CA . A CA 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.546 ? metalc ? metalc2 A OD1 ASP 111 A ASP 143 1_555 G CA CA . A CA 407 3_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.546 ? metalc ? metalc3 A OD2 ASP 157 A ASP 189 1_555 F CA CA . A CA 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? # _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 282 n n C1 O1 NAG sing 283 n n C1 O5 NAG sing 284 n n C1 H1 NAG sing 285 n n C2 C3 NAG sing 286 n n C2 N2 NAG sing 287 n n C2 H2 NAG sing 288 n n C3 C4 NAG sing 289 n n C3 O3 NAG sing 290 n n C3 H3 NAG sing 291 n n C4 C5 NAG sing 292 n n C4 O4 NAG sing 293 n n C4 H4 NAG sing 294 n n C5 C6 NAG sing 295 n n C5 O5 NAG sing 296 n n C5 H5 NAG sing 297 n n C6 O6 NAG sing 298 n n C6 H61 NAG sing 299 n n C6 H62 NAG sing 300 n n C7 C8 NAG sing 301 n n C7 N2 NAG sing 302 n n C7 O7 NAG doub 303 n n C8 H81 NAG sing 304 n n C8 H82 NAG sing 305 n n C8 H83 NAG sing 306 n n N2 HN2 NAG sing 307 n n O1 HO1 NAG sing 308 n n O3 HO3 NAG sing 309 n n O4 HO4 NAG sing 310 n n O6 HO6 NAG sing 311 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 6U6T _atom_sites.fract_transf_matrix[1][1] 0.013593 _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] 0.010286 _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] 0.003962 _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 CA A 1 406 601 CA CA . G 4 CA A 1 407 602 CA CA . H 5 NAG B 1 404 501 NAG NAG . # 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 . . . H 5 -17.082 0.568 9.617 1 58.89 ? C1 NAG 404 B 1 HETATM 2 C C2 NAG . . . H 5 -16.458 1.881 9.148 1 67.62 ? C2 NAG 404 B 1 HETATM 3 C C3 NAG . . . H 5 -17.443 3.031 9.339 1 62.47 ? C3 NAG 404 B 1 HETATM 4 C C4 NAG . . . H 5 -18.765 2.713 8.651 1 58.79 ? C4 NAG 404 B 1 HETATM 5 C C5 NAG . . . H 5 -19.299 1.365 9.132 1 61.43 ? C5 NAG 404 B 1 HETATM 6 C C6 NAG . . . H 5 -20.545 0.928 8.395 1 63.45 ? C6 NAG 404 B 1 HETATM 7 C C7 NAG . . . H 5 -14.008 1.93 9.308 1 89.79 ? C7 NAG 404 B 1 HETATM 8 C C8 NAG . . . H 5 -12.829 2.261 10.172 1 95.04 ? C8 NAG 404 B 1 HETATM 9 N N2 NAG . . . H 5 -15.212 2.149 9.849 1 77.89 ? N2 NAG 404 B 1 HETATM 10 O O3 NAG . . . H 5 -16.891 4.23 8.807 1 68.4 ? O3 NAG 404 B 1 HETATM 11 O O4 NAG . . . H 5 -19.721 3.73 8.931 1 56.34 ? O4 NAG 404 B 1 HETATM 12 O O5 NAG . . . H 5 -18.313 0.344 8.918 1 66.45 ? O5 NAG 404 B 1 HETATM 13 O O6 NAG . . . H 5 -20.938 -0.387 8.765 1 64.4 ? O6 NAG 404 B 1 HETATM 14 O O7 NAG . . . H 5 -13.877 1.484 8.172 1 88.07 ? O7 NAG 404 B 1 HETATM 15 H H1 NAG . . . H 5 -17.26 0.621 10.575 1 70.66 ? H1 NAG 404 B 1 HETATM 16 H H2 NAG . . . H 5 -16.265 1.805 8.194 1 81.14 ? H2 NAG 404 B 1 HETATM 17 H H3 NAG . . . H 5 -17.602 3.157 10.294 1 74.97 ? H3 NAG 404 B 1 HETATM 18 H H4 NAG . . . H 5 -18.62 2.673 7.687 1 70.54 ? H4 NAG 404 B 1 HETATM 19 H H5 NAG . . . H 5 -19.494 1.424 10.086 1 73.72 ? H5 NAG 404 B 1 HETATM 20 H H61 NAG . . . H 5 -21.27 1.547 8.601 1 76.14 ? H61 NAG 404 B 1 HETATM 21 H H62 NAG . . . H 5 -20.37 0.949 7.435 1 76.14 ? H62 NAG 404 B 1 HETATM 22 H H81 NAG . . . H 5 -12.005 2.075 9.684 1 114.05 ? H81 NAG 404 B 1 HETATM 23 H H82 NAG . . . H 5 -12.858 3.207 10.413 1 114.05 ? H82 NAG 404 B 1 HETATM 24 H H83 NAG . . . H 5 -12.857 1.718 10.983 1 114.05 ? H83 NAG 404 B 1 HETATM 25 H HN2 NAG . . . H 5 -15.253 2.482 10.697 1 93.47 ? HN2 NAG 404 B 1 HETATM 26 H HO3 NAG . . . H 5 -16.563 4.724 9.468 1 82.08 ? HO3 NAG 404 B 1 HETATM 27 H HO4 NAG . . . H 5 -19.597 4.414 8.378 1 67.6 ? HO4 NAG 404 B 1 HETATM 28 H HO6 NAG . . . H 5 -21.54 -0.69 8.187 1 77.28 ? HO6 NAG 404 B 1 # _model_server_stats.io_time_ms 73 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 28 #