data_4N63 # _model_server_result.job_id HsBZLZ6RqQAuRVJIC5-79A _model_server_result.datetime_utc '2024-11-24 12:03:35' _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 4n63 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":201}' # _entry.id 4N63 # _exptl.entry_id 4N63 _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 4N63 _cell.length_a 153.608 _cell.length_b 153.608 _cell.length_c 153.608 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4N63 _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 1 1,2,3 C,D,G,K,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 -76.804 -76.804 3 'crystal symmetry operation' 11_545 y+1/2,-z-1/2,-x 0 1 0 0 0 -1 -1 0 0 76.804 -76.804 0 4 'crystal symmetry operation' 7_555 -z+1/2,-x,y+1/2 0 0 -1 -1 0 0 0 1 0 76.804 0 76.804 5 'crystal symmetry operation' 10_545 -y,z-1/2,-x+1/2 0 -1 0 0 0 1 -1 0 0 0 -76.804 76.804 # _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 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 ? 4 2 1 NAG NGA C1 O1 . O3 HO3 . sing 3 ? 4 3 2 GAL NAG C1 O1 . O4 HO4 . sing 4 ? 4 4 3 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 4 n F NGA 1 F 1 NGA X 104 NGA 4 n F NAG 2 F 2 NAG X 103 NAG 4 n F GAL 3 F 3 GAL X 102 GAL 4 n F SIA 4 F 4 SIA X 101 SIA 4 n G NGA 1 G 1 NGA X 204 NGA 4 n G NAG 2 G 2 NAG X 203 NAG 4 n G GAL 3 G 3 GAL X 202 GAL 4 n G SIA 4 G 4 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 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf2 A SG CYS 42 A CYS 52 1_555 A SG CYS 268 A CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 A SG CYS 54 A CYS 64 1_555 A SG CYS 66 A CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 A SG CYS 87 A CYS 97 1_555 A SG CYS 129 A CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf5 A SG CYS 272 A CYS 281 1_555 A SG CYS 296 A CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf6 B SG CYS 144 B CYS 144 1_555 B SG CYS 148 B CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf7 C SG CYS 4 C CYS 14 1_555 D SG CYS 137 D CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf8 C SG CYS 42 C CYS 52 1_555 C SG CYS 268 C CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf9 C SG CYS 54 C CYS 64 1_555 C SG CYS 66 C CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 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 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale1 A ND2 ASN 28 A ASN 38 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale2 B ND2 ASN 82 B ASN 82 1_555 H C1 NAG . B NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale3 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale4 F O3 NGA . F NGA 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale5 F O4 NAG . F NAG 2 1_555 F C1 GAL . F GAL 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale6 F O3 GAL . F GAL 3 1_555 F C2 SIA . F SIA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale7 G O3 NGA . G NGA 1 1_555 G C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale8 G O4 NAG . G NAG 2 1_555 G C1 GAL . G GAL 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale9 G O3 GAL . G GAL 3 1_555 G C2 SIA . G SIA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.462 ? # _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 4N63 _atom_sites.fract_transf_matrix[1][1] 0.00651 _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] 0.00651 _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] 0.00651 _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 B 1 201 541 NAG NAG . I 6 HOH A 1 501 5 HOH HOH . I 6 HOH A 2 502 8 HOH HOH . I 6 HOH A 3 503 9 HOH HOH . I 6 HOH A 4 504 15 HOH HOH . I 6 HOH A 5 505 19 HOH HOH . I 6 HOH A 6 506 21 HOH HOH . I 6 HOH A 7 507 23 HOH HOH . I 6 HOH A 8 508 26 HOH HOH . I 6 HOH A 9 509 27 HOH HOH . I 6 HOH A 10 510 30 HOH HOH . I 6 HOH A 11 511 31 HOH HOH . I 6 HOH A 12 512 37 HOH HOH . I 6 HOH A 13 513 38 HOH HOH . I 6 HOH A 14 514 43 HOH HOH . I 6 HOH A 15 515 47 HOH HOH . I 6 HOH A 16 516 49 HOH HOH . I 6 HOH A 17 517 50 HOH HOH . I 6 HOH A 18 518 52 HOH HOH . I 6 HOH A 19 519 53 HOH HOH . I 6 HOH A 20 520 58 HOH HOH . I 6 HOH A 21 521 62 HOH HOH . I 6 HOH A 22 522 66 HOH HOH . I 6 HOH A 23 523 68 HOH HOH . I 6 HOH A 24 524 71 HOH HOH . I 6 HOH A 25 525 74 HOH HOH . I 6 HOH A 26 526 75 HOH HOH . I 6 HOH A 27 527 77 HOH HOH . I 6 HOH A 28 528 79 HOH HOH . J 6 HOH B 1 301 1 HOH HOH . J 6 HOH B 2 302 3 HOH HOH . J 6 HOH B 3 303 6 HOH HOH . J 6 HOH B 4 304 7 HOH HOH . J 6 HOH B 5 305 10 HOH HOH . J 6 HOH B 6 306 12 HOH HOH . J 6 HOH B 7 307 13 HOH HOH . J 6 HOH B 8 308 16 HOH HOH . J 6 HOH B 9 309 18 HOH HOH . J 6 HOH B 10 310 22 HOH HOH . J 6 HOH B 11 311 25 HOH HOH . J 6 HOH B 12 312 32 HOH HOH . J 6 HOH B 13 313 34 HOH HOH . J 6 HOH B 14 314 36 HOH HOH . J 6 HOH B 15 315 39 HOH HOH . J 6 HOH B 16 316 40 HOH HOH . J 6 HOH B 17 317 42 HOH HOH . J 6 HOH B 18 318 44 HOH HOH . J 6 HOH B 19 319 45 HOH HOH . J 6 HOH B 20 320 46 HOH HOH . J 6 HOH B 21 321 51 HOH HOH . J 6 HOH B 22 322 63 HOH HOH . J 6 HOH B 23 323 64 HOH HOH . J 6 HOH B 24 324 76 HOH HOH . K 6 HOH C 1 501 14 HOH HOH . K 6 HOH C 2 502 54 HOH HOH . K 6 HOH C 3 503 57 HOH HOH . K 6 HOH C 4 504 59 HOH HOH . K 6 HOH C 5 505 61 HOH HOH . K 6 HOH C 6 506 70 HOH HOH . K 6 HOH C 7 507 78 HOH HOH . L 6 HOH D 1 201 55 HOH HOH . L 6 HOH D 2 202 56 HOH HOH . L 6 HOH D 3 203 67 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 16.436 -66.395 1.412 1 95.92 ? C1 NAG 201 B 1 HETATM 2 C C2 NAG . . . H 5 16.535 -67.586 2.374 1 108.43 ? C2 NAG 201 B 1 HETATM 3 C C3 NAG . . . H 5 16.901 -67.106 3.779 1 113.55 ? C3 NAG 201 B 1 HETATM 4 C C4 NAG . . . H 5 18.15 -66.232 3.74 1 109.18 ? C4 NAG 201 B 1 HETATM 5 C C5 NAG . . . H 5 17.946 -65.093 2.747 1 111.31 ? C5 NAG 201 B 1 HETATM 6 C C6 NAG . . . H 5 19.168 -64.218 2.585 1 104.3 ? C6 NAG 201 B 1 HETATM 7 C C7 NAG . . . H 5 15.241 -69.665 2.541 1 105.81 ? C7 NAG 201 B 1 HETATM 8 C C8 NAG . . . H 5 13.871 -70.274 2.549 1 101.61 ? C8 NAG 201 B 1 HETATM 9 N N2 NAG . . . H 5 15.292 -68.337 2.402 1 108.38 ? N2 NAG 201 B 1 HETATM 10 O O3 NAG . . . H 5 17.121 -68.229 4.626 1 111.77 ? O3 NAG 201 B 1 HETATM 11 O O4 NAG . . . H 5 18.42 -65.708 5.033 1 86.51 ? O4 NAG 201 B 1 HETATM 12 O O5 NAG . . . H 5 17.649 -65.635 1.452 1 112.99 ? O5 NAG 201 B 1 HETATM 13 O O6 NAG . . . H 5 20.36 -64.989 2.556 1 99.63 ? O6 NAG 201 B 1 HETATM 14 O O7 NAG . . . H 5 16.257 -70.347 2.655 1 110.26 ? O7 NAG 201 B 1 # _model_server_stats.io_time_ms 106 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 344 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 14 #