data_6IDZ # _model_server_result.job_id StPxwV7-nnRyiZwknMJBoQ _model_server_result.datetime_utc '2024-12-02 11:02:31' _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 6idz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":201}' # _entry.id 6IDZ # _exptl.entry_id 6IDZ _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 2 _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 6IDZ _cell.length_a 116.101 _cell.length_b 116.101 _cell.length_c 296.275 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6IDZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 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 # _pdbx_entity_branch.entity_id 3 _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 ? 3 2 1 GAL NAG C1 O1 . O4 HO4 . sing 2 ? 3 3 2 SIA GAL C2 O2 . 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 404 NAG 3 n C GAL 2 C 2 GAL A 403 GAL 3 n C SIA 3 C 3 SIA A 402 SIA # 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 4 A CYS 4 1_555 B SG CYS 137 B CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 42 A CYS 42 1_555 A SG CYS 268 A CYS 268 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 A SG CYS 54 A CYS 54 1_555 A SG CYS 66 A CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf4 A SG CYS 87 A CYS 87 1_555 A SG CYS 129 A CYS 129 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 A SG CYS 272 A CYS 272 1_555 A SG CYS 296 A CYS 296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf6 B SG CYS 144 B CYS 144 1_555 B SG CYS 148 B CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 A ND2 ASN 28 A ASN 28 1_555 D C1 NAG . A NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale2 B ND2 ASN 82 B ASN 82 1_555 E C1 NAG . B NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale3 C O4 NAG . C NAG 1 1_555 C C1 GAL . C GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale4 C O3 GAL . C GAL 2 1_555 C C2 SIA . C SIA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.477 ? # _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 261 n n C1 O1 NAG sing 262 n n C1 O5 NAG sing 263 n n C1 H1 NAG sing 264 n n C2 C3 NAG sing 265 n n C2 N2 NAG sing 266 n n C2 H2 NAG sing 267 n n C3 C4 NAG sing 268 n n C3 O3 NAG sing 269 n n C3 H3 NAG sing 270 n n C4 C5 NAG sing 271 n n C4 O4 NAG sing 272 n n C4 H4 NAG sing 273 n n C5 C6 NAG sing 274 n n C5 O5 NAG sing 275 n n C5 H5 NAG sing 276 n n C6 O6 NAG sing 277 n n C6 H61 NAG sing 278 n n C6 H62 NAG sing 279 n n C7 C8 NAG sing 280 n n C7 N2 NAG sing 281 n n C7 O7 NAG doub 282 n n C8 H81 NAG sing 283 n n C8 H82 NAG sing 284 n n C8 H83 NAG sing 285 n n N2 HN2 NAG sing 286 n n O1 HO1 NAG sing 287 n n O3 HO3 NAG sing 288 n n O4 HO4 NAG sing 289 n n O6 HO6 NAG sing 290 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 6IDZ _atom_sites.fract_transf_matrix[1][1] 0.008613 _atom_sites.fract_transf_matrix[1][2] 0.004973 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009946 _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] 0.003375 _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 A 1 401 401 NAG NAG . E 4 NAG B 1 201 201 NAG NAG . F 5 HOH A 1 501 501 HOH HOH . F 5 HOH A 2 502 502 HOH HOH . F 5 HOH A 3 503 503 HOH HOH . F 5 HOH A 4 504 504 HOH HOH . F 5 HOH A 5 505 505 HOH HOH . F 5 HOH A 6 506 506 HOH HOH . F 5 HOH A 7 507 507 HOH HOH . F 5 HOH A 8 508 508 HOH HOH . F 5 HOH A 9 509 509 HOH HOH . F 5 HOH A 10 510 510 HOH HOH . F 5 HOH A 11 511 511 HOH HOH . F 5 HOH A 12 512 512 HOH HOH . F 5 HOH A 13 513 513 HOH HOH . F 5 HOH A 14 514 514 HOH HOH . F 5 HOH A 15 515 515 HOH HOH . F 5 HOH A 16 516 516 HOH HOH . F 5 HOH A 17 517 517 HOH HOH . F 5 HOH A 18 518 519 HOH HOH . F 5 HOH A 19 519 520 HOH HOH . F 5 HOH A 20 520 521 HOH HOH . F 5 HOH A 21 521 522 HOH HOH . F 5 HOH A 22 522 524 HOH HOH . F 5 HOH A 23 523 525 HOH HOH . F 5 HOH A 24 524 526 HOH HOH . F 5 HOH A 25 525 527 HOH HOH . F 5 HOH A 26 526 528 HOH HOH . F 5 HOH A 27 527 529 HOH HOH . F 5 HOH A 28 528 530 HOH HOH . F 5 HOH A 29 529 531 HOH HOH . F 5 HOH A 30 530 532 HOH HOH . F 5 HOH A 31 531 533 HOH HOH . F 5 HOH A 32 532 534 HOH HOH . F 5 HOH A 33 533 535 HOH HOH . F 5 HOH A 34 534 536 HOH HOH . F 5 HOH A 35 535 537 HOH HOH . F 5 HOH A 36 536 538 HOH HOH . F 5 HOH A 37 537 539 HOH HOH . F 5 HOH A 38 538 540 HOH HOH . F 5 HOH A 39 539 541 HOH HOH . F 5 HOH A 40 540 542 HOH HOH . F 5 HOH A 41 541 543 HOH HOH . F 5 HOH A 42 542 544 HOH HOH . F 5 HOH A 43 543 545 HOH HOH . F 5 HOH A 44 544 546 HOH HOH . F 5 HOH A 45 545 547 HOH HOH . F 5 HOH A 46 546 548 HOH HOH . F 5 HOH A 47 547 549 HOH HOH . F 5 HOH A 48 548 550 HOH HOH . F 5 HOH A 49 549 551 HOH HOH . F 5 HOH A 50 550 552 HOH HOH . F 5 HOH A 51 551 553 HOH HOH . F 5 HOH A 52 552 554 HOH HOH . F 5 HOH A 53 553 555 HOH HOH . F 5 HOH A 54 554 556 HOH HOH . F 5 HOH A 55 555 557 HOH HOH . F 5 HOH A 56 556 558 HOH HOH . F 5 HOH A 57 557 559 HOH HOH . F 5 HOH A 58 558 560 HOH HOH . F 5 HOH A 59 559 561 HOH HOH . F 5 HOH A 60 560 562 HOH HOH . G 5 HOH B 1 301 301 HOH HOH . G 5 HOH B 2 302 302 HOH HOH . G 5 HOH B 3 303 303 HOH HOH . G 5 HOH B 4 304 304 HOH HOH . G 5 HOH B 5 305 305 HOH HOH . G 5 HOH B 6 306 306 HOH HOH . G 5 HOH B 7 307 307 HOH HOH . G 5 HOH B 8 308 308 HOH HOH . G 5 HOH B 9 309 310 HOH HOH . G 5 HOH B 10 310 311 HOH HOH . G 5 HOH B 11 311 312 HOH HOH . G 5 HOH B 12 312 313 HOH HOH . G 5 HOH B 13 313 314 HOH HOH . G 5 HOH B 14 314 315 HOH HOH . G 5 HOH B 15 315 316 HOH HOH . G 5 HOH B 16 316 317 HOH HOH . G 5 HOH B 17 317 318 HOH HOH . G 5 HOH B 18 318 319 HOH HOH . G 5 HOH B 19 319 321 HOH HOH . G 5 HOH B 20 320 322 HOH HOH . G 5 HOH B 21 321 323 HOH HOH . G 5 HOH B 22 322 324 HOH HOH . G 5 HOH B 23 323 325 HOH HOH . G 5 HOH B 24 324 326 HOH HOH . G 5 HOH B 25 325 327 HOH HOH . G 5 HOH B 26 326 328 HOH HOH . G 5 HOH B 27 327 329 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 . . . E 4 -3.113 12.667 46.72 1 26.31 ? C1 NAG 201 B 1 HETATM 2 C C2 NAG . . . E 4 -3.914 13.254 45.552 1 27.8 ? C2 NAG 201 B 1 HETATM 3 C C3 NAG . . . E 4 -3.288 14.569 45.091 1 33.28 ? C3 NAG 201 B 1 HETATM 4 C C4 NAG . . . E 4 -3.148 15.53 46.264 1 32.53 ? C4 NAG 201 B 1 HETATM 5 C C5 NAG . . . E 4 -2.363 14.865 47.39 1 35.29 ? C5 NAG 201 B 1 HETATM 6 C C6 NAG . . . E 4 -2.277 15.718 48.634 1 41.18 ? C6 NAG 201 B 1 HETATM 7 C C7 NAG . . . E 4 -5.121 12.067 43.765 1 53.51 ? C7 NAG 201 B 1 HETATM 8 C C8 NAG . . . E 4 -6.339 12.822 44.208 1 58.62 ? C8 NAG 201 B 1 HETATM 9 N N2 NAG . . . E 4 -3.994 12.313 44.446 1 36.91 ? N2 NAG 201 B 1 HETATM 10 O O3 NAG . . . E 4 -4.098 15.151 44.076 1 40.67 ? O3 NAG 201 B 1 HETATM 11 O O4 NAG . . . E 4 -2.472 16.714 45.855 1 30.22 ? O4 NAG 201 B 1 HETATM 12 O O5 NAG . . . E 4 -3.008 13.641 47.774 1 32.29 ? O5 NAG 201 B 1 HETATM 13 O O6 NAG . . . E 4 -1.663 15.014 49.705 1 53.9 ? O6 NAG 201 B 1 HETATM 14 O O7 NAG . . . E 4 -5.155 11.268 42.834 1 52.13 ? O7 NAG 201 B 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 281 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #