data_6CF7 # _model_server_result.job_id Z7gHJn1OJ6w1H7ZHWBTAgg _model_server_result.datetime_utc '2024-10-17 07:31:56' _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 6cf7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":412}' # _entry.id 6CF7 # _exptl.entry_id 6CF7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 6 _entity.src_method syn _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 6CF7 _cell.length_a 161.445 _cell.length_b 161.445 _cell.length_c 161.445 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6CF7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 213 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 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,H,I,J _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' 5_555 z,x,y 0 0 1 1 0 0 0 1 0 0 0 0 3 'crystal symmetry operation' 9_555 y,z,x 0 1 0 0 0 1 1 0 0 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 6 _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 5 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 ? 3 4 3 MAN BMA C1 O1 . O3 HO3 . sing 4 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 5 ? 4 3 2 BMA NAG C1 O1 . O4 HO4 . sing 6 ? 5 2 1 NAG 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 3 n C NAG 1 C 1 NAG D 2 NAG 3 n C NAG 2 C 2 NAG D 3 NAG 3 n C BMA 3 C 3 BMA D 4 BMA 3 n C MAN 4 C 4 MAN D 5 MAN 4 n D NAG 1 D 1 NAG D 6 NAG 4 n D NAG 2 D 2 NAG D 7 NAG 4 n D BMA 3 D 3 BMA D 8 BMA 5 n E NAG 1 E 1 NAG D 9 NAG 5 n E NAG 2 E 2 NAG D 10 NAG 5 n F NAG 1 F 1 NAG D 11 NAG 5 n F NAG 2 F 2 NAG D 12 NAG # 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 14 1_555 B SG CYS 137 B CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf2 A SG CYS 42 A CYS 52 1_555 A SG CYS 274 A CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 55 A CYS 64 1_555 A SG CYS 67 A CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf4 A SG CYS 90 A CYS 97 1_555 A SG CYS 135 A CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf5 A SG CYS 278 A CYS 281 1_555 A SG CYS 302 A CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf6 B SG CYS 144 B CYS 144 1_555 B SG CYS 148 B CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? covale ? covale1 A ND2 ASN 11 A ASN 21 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale2 A ND2 ASN 23 A ASN 33 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale3 A ND2 ASN 54 A ASN 63 1_555 G C1 NAG . A NAG 412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale4 A ND2 ASN 87 A ASN 95 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale5 A ND2 ASN 286 A ASN 289 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale6 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale7 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale8 C O3 BMA . C BMA 3 1_555 C C1 MAN . C MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? 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 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale11 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale12 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? # _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 357 n n C1 O1 NAG sing 358 n n C1 O5 NAG sing 359 n n C1 H1 NAG sing 360 n n C2 C3 NAG sing 361 n n C2 N2 NAG sing 362 n n C2 H2 NAG sing 363 n n C3 C4 NAG sing 364 n n C3 O3 NAG sing 365 n n C3 H3 NAG sing 366 n n C4 C5 NAG sing 367 n n C4 O4 NAG sing 368 n n C4 H4 NAG sing 369 n n C5 C6 NAG sing 370 n n C5 O5 NAG sing 371 n n C5 H5 NAG sing 372 n n C6 O6 NAG sing 373 n n C6 H61 NAG sing 374 n n C6 H62 NAG sing 375 n n C7 C8 NAG sing 376 n n C7 N2 NAG sing 377 n n C7 O7 NAG doub 378 n n C8 H81 NAG sing 379 n n C8 H82 NAG sing 380 n n C8 H83 NAG sing 381 n n N2 HN2 NAG sing 382 n n O1 HO1 NAG sing 383 n n O3 HO3 NAG sing 384 n n O4 HO4 NAG sing 385 n n O6 HO6 NAG sing 386 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 6CF7 _atom_sites.fract_transf_matrix[1][1] 0.006194 _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] 0.006194 _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] 0.006194 _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 6 NAG A 1 412 13 NAG NAG . H 7 EZ7 B 1 201 1 EZ7 PDB . I 8 HOH A 1 501 46 HOH HOH . I 8 HOH A 2 502 18 HOH HOH . I 8 HOH A 3 503 38 HOH HOH . I 8 HOH A 4 504 49 HOH HOH . I 8 HOH A 5 505 35 HOH HOH . I 8 HOH A 6 506 47 HOH HOH . I 8 HOH A 7 507 10 HOH HOH . I 8 HOH A 8 508 20 HOH HOH . I 8 HOH A 9 509 22 HOH HOH . I 8 HOH A 10 510 16 HOH HOH . I 8 HOH A 11 511 13 HOH HOH . I 8 HOH A 12 512 7 HOH HOH . I 8 HOH A 13 513 30 HOH HOH . I 8 HOH A 14 514 21 HOH HOH . I 8 HOH A 15 515 9 HOH HOH . I 8 HOH A 16 516 52 HOH HOH . I 8 HOH A 17 517 24 HOH HOH . I 8 HOH A 18 518 6 HOH HOH . I 8 HOH A 19 519 28 HOH HOH . I 8 HOH A 20 520 50 HOH HOH . I 8 HOH A 21 521 26 HOH HOH . I 8 HOH A 22 522 45 HOH HOH . I 8 HOH A 23 523 17 HOH HOH . I 8 HOH A 24 524 32 HOH HOH . I 8 HOH A 25 525 27 HOH HOH . I 8 HOH A 26 526 29 HOH HOH . I 8 HOH A 27 527 37 HOH HOH . I 8 HOH A 28 528 23 HOH HOH . J 8 HOH B 1 301 48 HOH HOH . J 8 HOH B 2 302 8 HOH HOH . J 8 HOH B 3 303 42 HOH HOH . J 8 HOH B 4 304 11 HOH HOH . J 8 HOH B 5 305 3 HOH HOH . J 8 HOH B 6 306 12 HOH HOH . J 8 HOH B 7 307 44 HOH HOH . J 8 HOH B 8 308 19 HOH HOH . J 8 HOH B 9 309 15 HOH HOH . J 8 HOH B 10 310 51 HOH HOH . J 8 HOH B 11 311 34 HOH HOH . J 8 HOH B 12 312 31 HOH HOH . J 8 HOH B 13 313 33 HOH HOH . J 8 HOH B 14 314 1 HOH HOH . J 8 HOH B 15 315 2 HOH HOH . J 8 HOH B 16 316 39 HOH HOH . J 8 HOH B 17 317 14 HOH HOH . J 8 HOH B 18 318 5 HOH HOH . J 8 HOH B 19 319 43 HOH HOH . J 8 HOH B 20 320 41 HOH HOH . J 8 HOH B 21 321 40 HOH HOH . J 8 HOH B 22 322 4 HOH HOH . J 8 HOH B 23 323 25 HOH HOH . J 8 HOH B 24 324 36 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 6 -24.892 23.442 6.927 1 132.86 ? C1 NAG 412 A 1 HETATM 2 C C2 NAG . . . G 6 -26.271 23.838 6.406 1 146.6 ? C2 NAG 412 A 1 HETATM 3 C C3 NAG . . . G 6 -26.883 24.915 7.298 1 154.7 ? C3 NAG 412 A 1 HETATM 4 C C4 NAG . . . G 6 -26.881 24.467 8.754 1 152.89 ? C4 NAG 412 A 1 HETATM 5 C C5 NAG . . . G 6 -25.481 24.029 9.174 1 146.75 ? C5 NAG 412 A 1 HETATM 6 C C6 NAG . . . G 6 -25.437 23.446 10.567 1 150.44 ? C6 NAG 412 A 1 HETATM 7 C C7 NAG . . . G 6 -26.298 23.472 3.978 1 153.57 ? C7 NAG 412 A 1 HETATM 8 C C8 NAG . . . G 6 -26.202 24.115 2.627 1 156.1 ? C8 NAG 412 A 1 HETATM 9 N N2 NAG . . . G 6 -26.199 24.296 5.027 1 151.49 ? N2 NAG 412 A 1 HETATM 10 O O3 NAG . . . G 6 -28.215 25.181 6.875 1 158.61 ? O3 NAG 412 A 1 HETATM 11 O O4 NAG . . . G 6 -27.306 25.536 9.591 1 154.33 ? O4 NAG 412 A 1 HETATM 12 O O5 NAG . . . G 6 -24.997 23.012 8.284 1 134.4 ? O5 NAG 412 A 1 HETATM 13 O O6 NAG . . . G 6 -24.59 24.204 11.42 1 150.47 ? O6 NAG 412 A 1 HETATM 14 O O7 NAG . . . G 6 -26.454 22.263 4.114 1 152.56 ? O7 NAG 412 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 285 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 14 #