data_4N62 # _model_server_result.job_id r1391xOar2D4J4OIoarJIw _model_server_result.datetime_utc '2024-11-28 05:03:27' _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 4n62 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":404}' # _entry.id 4N62 # _exptl.entry_id 4N62 _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 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 90 _cell.entry_id 4N62 _cell.length_a 153.806 _cell.length_b 153.806 _cell.length_c 153.806 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4N62 _symmetry.cell_setting ? _symmetry.Int_Tables_number 198 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 3' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA hexameric 6 author_and_software_defined_assembly 1 PISA hexameric 6 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F,H,I,J,K 1 1,2,3 C,D,G,L 2 1,4,5 # 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' 8_544 -z,x-1/2,-y-1/2 0 0 -1 1 0 0 0 -1 0 0 -76.903 -76.903 3 'crystal symmetry operation' 11_545 y+1/2,-z-1/2,-x 0 1 0 0 0 -1 -1 0 0 76.903 -76.903 0 4 'crystal symmetry operation' 5_555 z,x,y 0 0 1 1 0 0 0 1 0 0 0 0 5 'crystal symmetry operation' 9_555 y,z,x 0 1 0 0 0 1 1 0 0 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 ? 5 H N N ? 5 I N 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 GAL NGS C1 O1 . O4 HO4 . sing 4 ? 4 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 E NAG 1 E 1 NAG A 521 NAG 3 n E NAG 2 E 2 NAG A 522 NAG 3 n E BMA 3 E 3 BMA A 523 BMA 4 n F NGS 1 F 1 NGS X 103 NGS 4 n F GAL 2 F 2 GAL X 102 GAL 4 n F SIA 3 F 3 SIA X 101 SIA 4 n G NGS 1 G 1 NGS X 203 NGS 4 n G GAL 2 G 2 GAL X 202 GAL 4 n G SIA 3 G 3 SIA X 201 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 14 1_555 B SG CYS 137 B CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 A SG CYS 42 A CYS 52 1_555 A SG CYS 268 A CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf3 A SG CYS 54 A CYS 64 1_555 A SG CYS 66 A CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf4 A SG CYS 87 A CYS 97 1_555 A SG CYS 129 A CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf5 A SG CYS 272 A CYS 281 1_555 A SG CYS 296 A CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf6 B SG CYS 144 B CYS 144 1_555 B SG CYS 148 B CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf7 C SG CYS 4 C CYS 14 1_555 D SG CYS 137 D CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf8 C SG CYS 42 C CYS 52 1_555 C SG CYS 268 C CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf9 C SG CYS 54 C CYS 64 1_555 C SG CYS 66 C CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf10 C SG CYS 87 C CYS 97 1_555 C SG CYS 129 C CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf11 C SG CYS 272 C CYS 281 1_555 C SG CYS 296 C CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf12 D SG CYS 144 D CYS 144 1_555 D SG CYS 148 D CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale1 A ND2 ASN 28 A ASN 38 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale2 A ND2 ASN 231 A ASN 240 1_555 H C1 NAG . A NAG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale3 B ND2 ASN 82 B ASN 82 1_555 I C1 NAG . B NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale4 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale5 E O4 NAG . E NAG 2 1_555 E C1 BMA . E BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale6 F O4 NGS . F NGS 1 1_555 F C1 GAL . F GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale7 F O3 GAL . F GAL 2 1_555 F C2 SIA . F SIA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale8 G O4 NGS . G NGS 1 1_555 G C1 GAL . G GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale9 G O3 GAL . G GAL 2 1_555 G C2 SIA . G SIA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? # _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 4N62 _atom_sites.fract_transf_matrix[1][1] 0.006502 _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] 0.006502 _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] 0.006502 _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 H 5 NAG A 1 404 531 NAG NAG . I 5 NAG B 1 201 541 NAG NAG . J 6 HOH A 1 501 4 HOH HOH . J 6 HOH A 2 502 6 HOH HOH . J 6 HOH A 3 503 7 HOH HOH . J 6 HOH A 4 504 13 HOH HOH . J 6 HOH A 5 505 14 HOH HOH . J 6 HOH A 6 506 15 HOH HOH . J 6 HOH A 7 507 16 HOH HOH . J 6 HOH A 8 508 18 HOH HOH . J 6 HOH A 9 509 19 HOH HOH . J 6 HOH A 10 510 23 HOH HOH . J 6 HOH A 11 511 25 HOH HOH . J 6 HOH A 12 512 26 HOH HOH . J 6 HOH A 13 513 32 HOH HOH . J 6 HOH A 14 514 34 HOH HOH . J 6 HOH A 15 515 36 HOH HOH . J 6 HOH A 16 516 37 HOH HOH . J 6 HOH A 17 517 41 HOH HOH . J 6 HOH A 18 518 44 HOH HOH . J 6 HOH A 19 519 45 HOH HOH . J 6 HOH A 20 520 49 HOH HOH . J 6 HOH A 21 521 51 HOH HOH . J 6 HOH A 22 522 52 HOH HOH . J 6 HOH A 23 523 53 HOH HOH . J 6 HOH A 24 524 56 HOH HOH . J 6 HOH A 25 525 59 HOH HOH . J 6 HOH A 26 526 60 HOH HOH . J 6 HOH A 27 527 63 HOH HOH . J 6 HOH A 28 528 65 HOH HOH . J 6 HOH A 29 529 66 HOH HOH . J 6 HOH A 30 530 67 HOH HOH . J 6 HOH A 31 531 68 HOH HOH . J 6 HOH A 32 532 71 HOH HOH . J 6 HOH A 33 533 76 HOH HOH . J 6 HOH A 34 534 77 HOH HOH . J 6 HOH A 35 535 85 HOH HOH . J 6 HOH A 36 536 87 HOH HOH . J 6 HOH A 37 537 90 HOH HOH . J 6 HOH A 38 538 92 HOH HOH . J 6 HOH A 39 539 93 HOH HOH . J 6 HOH A 40 540 97 HOH HOH . J 6 HOH A 41 541 100 HOH HOH . K 6 HOH B 1 301 1 HOH HOH . K 6 HOH B 2 302 2 HOH HOH . K 6 HOH B 3 303 5 HOH HOH . K 6 HOH B 4 304 11 HOH HOH . K 6 HOH B 5 305 17 HOH HOH . K 6 HOH B 6 306 21 HOH HOH . K 6 HOH B 7 307 24 HOH HOH . K 6 HOH B 8 308 28 HOH HOH . K 6 HOH B 9 309 29 HOH HOH . K 6 HOH B 10 310 30 HOH HOH . K 6 HOH B 11 311 31 HOH HOH . K 6 HOH B 12 312 33 HOH HOH . K 6 HOH B 13 313 43 HOH HOH . K 6 HOH B 14 314 47 HOH HOH . K 6 HOH B 15 315 58 HOH HOH . K 6 HOH B 16 316 61 HOH HOH . K 6 HOH B 17 317 74 HOH HOH . K 6 HOH B 18 318 75 HOH HOH . K 6 HOH B 19 319 79 HOH HOH . K 6 HOH B 20 320 80 HOH HOH . K 6 HOH B 21 321 81 HOH HOH . K 6 HOH B 22 322 83 HOH HOH . K 6 HOH B 23 323 84 HOH HOH . K 6 HOH B 24 324 86 HOH HOH . K 6 HOH B 25 325 88 HOH HOH . L 6 HOH C 1 501 12 HOH HOH . L 6 HOH C 2 502 72 HOH HOH . L 6 HOH C 3 503 73 HOH HOH . L 6 HOH C 4 504 82 HOH HOH . L 6 HOH C 5 505 96 HOH HOH . L 6 HOH C 6 506 98 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 . . . H 5 65.959 -42.597 -23.043 1 127.36 ? C1 NAG 404 A 1 HETATM 2 C C2 NAG . . . H 5 65.99 -44.097 -23.343 1 138.54 ? C2 NAG 404 A 1 HETATM 3 C C3 NAG . . . H 5 67.35 -44.501 -23.911 1 140.5 ? C3 NAG 404 A 1 HETATM 4 C C4 NAG . . . H 5 67.705 -43.624 -25.106 1 140.7 ? C4 NAG 404 A 1 HETATM 5 C C5 NAG . . . H 5 67.601 -42.148 -24.728 1 137.91 ? C5 NAG 404 A 1 HETATM 6 C C6 NAG . . . H 5 67.835 -41.219 -25.897 1 133.6 ? C6 NAG 404 A 1 HETATM 7 C C7 NAG . . . H 5 66.35 -44.879 -21.02 1 146.81 ? C7 NAG 404 A 1 HETATM 8 C C8 NAG . . . H 5 65.831 -45.776 -19.935 1 146.32 ? C8 NAG 404 A 1 HETATM 9 N N2 NAG . . . H 5 65.658 -44.892 -22.165 1 143.13 ? N2 NAG 404 A 1 HETATM 10 O O3 NAG . . . H 5 67.31 -45.866 -24.311 1 141.58 ? O3 NAG 404 A 1 HETATM 11 O O4 NAG . . . H 5 69.026 -43.909 -25.552 1 142.47 ? O4 NAG 404 A 1 HETATM 12 O O5 NAG . . . H 5 66.285 -41.864 -24.229 1 133.95 ? O5 NAG 404 A 1 HETATM 13 O O6 NAG . . . H 5 67.037 -40.048 -25.797 1 128.84 ? O6 NAG 404 A 1 HETATM 14 O O7 NAG . . . H 5 67.35 -44.182 -20.859 1 149.81 ? O7 NAG 404 A 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 14 #