data_4N61 # _model_server_result.job_id 3tzkM0AWXQjf6URtfDRqoQ _model_server_result.datetime_utc '2024-10-17 21:48:01' _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 4n61 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":201}' # _entry.id 4N61 # _exptl.entry_id 4N61 _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 4N61 _cell.length_a 153.913 _cell.length_b 153.913 _cell.length_c 153.913 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4N61 _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,G,H,J,K 1 1,2,3 C,D,I,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' 6_445 z-1/2,-x-1/2,-y 0 0 1 -1 0 0 0 -1 0 -76.9565 -76.9565 0 3 'crystal symmetry operation' 12_455 -y-1/2,-z,x+1/2 0 -1 0 0 0 -1 1 0 0 -76.9565 0 76.9565 4 'crystal symmetry operation' 8_555 -z,x+1/2,-y+1/2 0 0 -1 1 0 0 0 -1 0 0 76.9565 76.9565 5 'crystal symmetry operation' 11_455 y-1/2,-z+1/2,-x 0 1 0 0 0 -1 -1 0 0 -76.9565 76.9565 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 G N N ? 5 H 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 ? 4 2 1 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 GAL 1 F 1 GAL X 102 GAL 4 n F SIA 2 F 2 SIA X 101 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 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 42 A CYS 52 1_555 A SG CYS 268 A CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf3 A SG CYS 54 A CYS 64 1_555 A SG CYS 66 A CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf4 A SG CYS 87 A CYS 97 1_555 A SG CYS 129 A CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 A SG CYS 272 A CYS 281 1_555 A SG CYS 296 A CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 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 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf9 C SG CYS 54 C CYS 64 1_555 C SG CYS 66 C CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 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 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 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 G C1 NAG . A NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale3 B ND2 ASN 82 B ASN 82 1_555 H C1 NAG . B NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale4 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale5 F O3 GAL . F GAL 1 1_555 F C2 SIA . F SIA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? # _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 ? # 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 4N61 _atom_sites.fract_transf_matrix[1][1] 0.006497 _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] 0.006497 _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] 0.006497 _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 5 NAG A 1 403 531 NAG NAG . H 5 NAG B 1 201 541 NAG NAG . I 6 SIA C 1 401 201 SIA SIA . J 7 HOH A 1 501 2 HOH HOH . J 7 HOH A 2 502 4 HOH HOH . J 7 HOH A 3 503 6 HOH HOH . J 7 HOH A 4 504 10 HOH HOH . J 7 HOH A 5 505 11 HOH HOH . J 7 HOH A 6 506 12 HOH HOH . J 7 HOH A 7 507 16 HOH HOH . J 7 HOH A 8 508 20 HOH HOH . J 7 HOH A 9 509 23 HOH HOH . J 7 HOH A 10 510 24 HOH HOH . J 7 HOH A 11 511 25 HOH HOH . J 7 HOH A 12 512 28 HOH HOH . J 7 HOH A 13 513 32 HOH HOH . J 7 HOH A 14 514 33 HOH HOH . J 7 HOH A 15 515 34 HOH HOH . J 7 HOH A 16 516 35 HOH HOH . J 7 HOH A 17 517 40 HOH HOH . J 7 HOH A 18 518 43 HOH HOH . J 7 HOH A 19 519 45 HOH HOH . J 7 HOH A 20 520 46 HOH HOH . J 7 HOH A 21 521 47 HOH HOH . J 7 HOH A 22 522 53 HOH HOH . J 7 HOH A 23 523 55 HOH HOH . J 7 HOH A 24 524 57 HOH HOH . J 7 HOH A 25 525 59 HOH HOH . J 7 HOH A 26 526 60 HOH HOH . J 7 HOH A 27 527 66 HOH HOH . K 7 HOH B 1 301 1 HOH HOH . K 7 HOH B 2 302 3 HOH HOH . K 7 HOH B 3 303 7 HOH HOH . K 7 HOH B 4 304 9 HOH HOH . K 7 HOH B 5 305 13 HOH HOH . K 7 HOH B 6 306 15 HOH HOH . K 7 HOH B 7 307 17 HOH HOH . K 7 HOH B 8 308 18 HOH HOH . K 7 HOH B 9 309 19 HOH HOH . K 7 HOH B 10 310 21 HOH HOH . K 7 HOH B 11 311 27 HOH HOH . K 7 HOH B 12 312 30 HOH HOH . K 7 HOH B 13 313 36 HOH HOH . K 7 HOH B 14 314 38 HOH HOH . K 7 HOH B 15 315 42 HOH HOH . K 7 HOH B 16 316 44 HOH HOH . K 7 HOH B 17 317 48 HOH HOH . K 7 HOH B 18 318 49 HOH HOH . K 7 HOH B 19 319 51 HOH HOH . K 7 HOH B 20 320 52 HOH HOH . K 7 HOH B 21 321 58 HOH HOH . L 7 HOH C 1 501 41 HOH HOH . L 7 HOH C 2 502 50 HOH HOH . L 7 HOH C 3 503 62 HOH HOH . L 7 HOH C 4 504 65 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 -66.48 1.296 16.729 1 78.17 ? C1 NAG 201 B 1 HETATM 2 C C2 NAG . . . H 5 -67.663 2.285 16.754 1 86.47 ? C2 NAG 201 B 1 HETATM 3 C C3 NAG . . . H 5 -67.168 3.708 17.04 1 94.98 ? C3 NAG 201 B 1 HETATM 4 C C4 NAG . . . H 5 -66.301 3.739 18.29 1 93.12 ? C4 NAG 201 B 1 HETATM 5 C C5 NAG . . . H 5 -65.157 2.741 18.14 1 93.99 ? C5 NAG 201 B 1 HETATM 6 C C6 NAG . . . H 5 -64.275 2.659 19.364 1 96.77 ? C6 NAG 201 B 1 HETATM 7 C C7 NAG . . . H 5 -69.721 2.458 15.423 1 81.53 ? C7 NAG 201 B 1 HETATM 8 C C8 NAG . . . H 5 -70.317 2.385 14.048 1 72.92 ? C8 NAG 201 B 1 HETATM 9 N N2 NAG . . . H 5 -68.402 2.246 15.507 1 82 ? N2 NAG 201 B 1 HETATM 10 O O3 NAG . . . H 5 -68.282 4.583 17.199 1 95.81 ? O3 NAG 201 B 1 HETATM 11 O O4 NAG . . . H 5 -65.788 5.05 18.501 1 88.67 ? O4 NAG 201 B 1 HETATM 12 O O5 NAG . . . H 5 -65.701 1.428 17.934 1 94.51 ? O5 NAG 201 B 1 HETATM 13 O O6 NAG . . . H 5 -65.047 2.677 20.557 1 101.26 ? O6 NAG 201 B 1 HETATM 14 O O7 NAG . . . H 5 -70.403 2.696 16.417 1 92.38 ? O7 NAG 201 B 1 # _model_server_stats.io_time_ms 74 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 277 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 14 #