data_5O7P # _model_server_result.job_id HQV0ph-j7JmNVZSgULzffA _model_server_result.datetime_utc '2024-11-02 00:35:29' _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 5o7p # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":707}' # _entry.id 5O7P # _exptl.entry_id 5O7P _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 7 _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 120 _cell.entry_id 5O7P _cell.length_a 141.131 _cell.length_b 141.131 _cell.length_c 320.817 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5O7P _symmetry.cell_setting ? _symmetry.Int_Tables_number 181 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 64 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 _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 ? 5 E N N ? 5 F N N ? 5 G N N ? 5 H N N ? 5 I N N ? 5 J N N ? 5 K N N # _pdbx_entity_branch.entity_id 4 _pdbx_entity_branch.type 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 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 4 3 2 BMA 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 4 n D NAG 1 D 1 NAG C 1250 NAG 4 n D NAG 2 D 2 NAG C 1251 NAG 4 n D BMA 3 D 3 BMA C 1252 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 29 C CYS 29 1_555 A SG CYS 56 C CYS 56 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 A SG CYS 156 C CYS 156 1_555 A SG CYS 183 C CYS 183 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf3 A SG CYS 186 C CYS 186 1_555 A SG CYS 194 C CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.985 ? disulf ? disulf4 A SG CYS 190 C CYS 190 1_555 A SG CYS 202 C CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf5 A SG CYS 210 C CYS 210 1_555 A SG CYS 218 C CYS 218 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf6 A SG CYS 214 C CYS 214 1_555 A SG CYS 226 C CYS 226 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf7 A SG CYS 227 C CYS 227 1_555 A SG CYS 235 C CYS 235 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf8 A SG CYS 231 C CYS 231 1_555 A SG CYS 243 C CYS 243 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf9 A SG CYS 246 C CYS 246 1_555 A SG CYS 255 C CYS 255 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf10 A SG CYS 259 C CYS 259 1_555 A SG CYS 286 C CYS 286 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf11 A SG CYS 290 C CYS 290 1_555 A SG CYS 301 C CYS 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf12 A SG CYS 305 C CYS 305 1_555 A SG CYS 320 C CYS 320 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.903 ? disulf ? disulf13 A SG CYS 323 C CYS 323 1_555 A SG CYS 327 C CYS 327 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf14 A SG CYS 331 C CYS 331 1_555 A SG CYS 354 C CYS 354 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf15 A SG CYS 463 C CYS 463 1_555 A SG CYS 493 C CYS 493 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf16 A SG CYS 500 C CYS 500 1_555 A SG CYS 509 C CYS 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf17 A SG CYS 504 C CYS 504 1_555 A SG CYS 517 C CYS 517 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf18 A SG CYS 520 C CYS 520 1_555 A SG CYS 529 C CYS 529 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf19 A SG CYS 533 C CYS 533 1_555 A SG CYS 549 C CYS 549 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf20 A SG CYS 552 C CYS 552 1_555 A SG CYS 565 C CYS 565 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf21 A SG CYS 556 C CYS 556 1_555 A SG CYS 573 C CYS 573 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf22 A SG CYS 576 C CYS 576 1_555 A SG CYS 585 C CYS 585 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf23 A SG CYS 589 C CYS 589 1_555 A SG CYS 610 C CYS 610 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf24 A SG CYS 613 C CYS 613 1_555 A SG CYS 621 C CYS 621 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf25 A SG CYS 617 C CYS 617 1_555 A SG CYS 629 C CYS 629 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf26 B SG CYS 23 A CYS 23 1_555 B SG CYS 88 A CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf27 B SG CYS 134 A CYS 134 1_555 B SG CYS 194 A CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf28 C SG CYS 42 B CYS 22 1_555 C SG CYS 116 B CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf29 C SG CYS 171 B CYS 151 1_555 C SG CYS 227 B CYS 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? covale ? covale1 A ND2 ASN 126 C ASN 126 1_555 E C1 NAG . C NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale2 A ND2 ASN 250 C ASN 250 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale3 A ND2 ASN 353 C ASN 353 1_555 F C1 NAG . C NAG 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale4 A ND2 ASN 408 C ASN 408 1_555 G C1 NAG . C NAG 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.471 ? covale ? covale5 A ND2 ASN 414 C ASN 414 1_555 H C1 NAG . C NAG 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.458 ? covale ? covale6 A ND2 ASN 437 C ASN 437 1_555 I C1 NAG . C NAG 708 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale7 A ND2 ASN 469 C ASN 469 1_555 J C1 NAG . C NAG 709 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale8 A ND2 ASN 522 C ASN 522 1_555 K C1 NAG . C NAG 710 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale9 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale10 D O4 NAG . D NAG 2 1_555 D C1 BMA . D BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? # _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 259 n n C1 O1 NAG sing 260 n n C1 O5 NAG sing 261 n n C1 H1 NAG sing 262 n n C2 C3 NAG sing 263 n n C2 N2 NAG sing 264 n n C2 H2 NAG sing 265 n n C3 C4 NAG sing 266 n n C3 O3 NAG sing 267 n n C3 H3 NAG sing 268 n n C4 C5 NAG sing 269 n n C4 O4 NAG sing 270 n n C4 H4 NAG sing 271 n n C5 C6 NAG sing 272 n n C5 O5 NAG sing 273 n n C5 H5 NAG sing 274 n n C6 O6 NAG sing 275 n n C6 H61 NAG sing 276 n n C6 H62 NAG sing 277 n n C7 C8 NAG sing 278 n n C7 N2 NAG sing 279 n n C7 O7 NAG doub 280 n n C8 H81 NAG sing 281 n n C8 H82 NAG sing 282 n n C8 H83 NAG sing 283 n n N2 HN2 NAG sing 284 n n O1 HO1 NAG sing 285 n n O3 HO3 NAG sing 286 n n O4 HO4 NAG sing 287 n n O6 HO6 NAG sing 288 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 5O7P _atom_sites.fract_transf_matrix[1][1] 0.007086 _atom_sites.fract_transf_matrix[1][2] 0.004091 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008182 _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] 0.003117 _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 E 5 NAG C 1 701 1126 NAG NAG . F 5 NAG C 1 705 1353 NAG NAG . G 5 NAG C 1 706 1408 NAG NAG . H 5 NAG C 1 707 1414 NAG NAG . I 5 NAG C 1 708 1437 NAG NAG . J 5 NAG C 1 709 1469 NAG NAG . K 5 NAG C 1 710 1522 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 15.078 84.383 17.874 1 284.1 ? C1 NAG 707 C 1 HETATM 2 C C2 NAG . . . H 5 16.54 84.661 17.54 1 274.94 ? C2 NAG 707 C 1 HETATM 3 C C3 NAG . . . H 5 16.652 85.911 16.671 1 269.95 ? C3 NAG 707 C 1 HETATM 4 C C4 NAG . . . H 5 15.759 85.786 15.443 1 266.96 ? C4 NAG 707 C 1 HETATM 5 C C5 NAG . . . H 5 14.33 85.434 15.854 1 267.71 ? C5 NAG 707 C 1 HETATM 6 C C6 NAG . . . H 5 13.427 85.161 14.674 1 270.02 ? C6 NAG 707 C 1 HETATM 7 C C7 NAG . . . H 5 18.382 84.033 19.032 1 286.13 ? C7 NAG 707 C 1 HETATM 8 C C8 NAG . . . H 5 19.081 84.319 20.327 1 298.44 ? C8 NAG 707 C 1 HETATM 9 N N2 NAG . . . H 5 17.33 84.808 18.751 1 278.69 ? N2 NAG 707 C 1 HETATM 10 O O3 NAG . . . H 5 18.006 86.093 16.269 1 270.01 ? O3 NAG 707 C 1 HETATM 11 O O4 NAG . . . H 5 15.755 87.013 14.721 1 263.72 ? O4 NAG 707 C 1 HETATM 12 O O5 NAG . . . H 5 14.326 84.247 16.664 1 276.21 ? O5 NAG 707 C 1 HETATM 13 O O6 NAG . . . H 5 12.115 85.659 14.897 1 276.33 ? O6 NAG 707 C 1 HETATM 14 O O7 NAG . . . H 5 18.755 83.143 18.275 1 288.41 ? O7 NAG 707 C 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 320 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 14 #