data_3RIF # _model_server_result.job_id dRgHMezWBtrpTLFs5LlKLA _model_server_result.datetime_utc '2024-11-05 06:45:49' _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 3rif # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"CA","auth_seq_id":400}' # _entry.id 3RIF # _exptl.entry_id 3RIF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 8 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 3 _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 3RIF _cell.length_a 155.442 _cell.length_b 155.442 _cell.length_c 575.354 _cell.Z_PDB 40 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3RIF _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details pentadecameric _pdbx_struct_assembly.oligomeric_count 15 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 8 Y N N ? 8 CA N N ? 8 JA N N # 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 130 A CYS 130 1_555 A SG CYS 144 A CYS 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 191 A CYS 191 1_555 A SG CYS 202 A CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 B SG CYS 130 B CYS 130 1_555 B SG CYS 144 B CYS 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf4 B SG CYS 191 B CYS 191 1_555 B SG CYS 202 B CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 C SG CYS 130 C CYS 130 1_555 C SG CYS 144 C CYS 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf6 C SG CYS 191 C CYS 191 1_555 C SG CYS 202 C CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf7 D SG CYS 130 D CYS 130 1_555 D SG CYS 144 D CYS 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf8 D SG CYS 191 D CYS 191 1_555 D SG CYS 202 D CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf9 E SG CYS 130 E CYS 130 1_555 E SG CYS 144 E CYS 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf10 E SG CYS 191 E CYS 191 1_555 E SG CYS 202 E CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf11 F SG CYS 22 F CYS 22 1_555 F SG CYS 96 F CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf12 G SG CYS 22 G CYS 22 1_555 G SG CYS 96 G CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf13 G SG CYS 149 G CYS 149 1_555 G SG CYS 204 G CYS 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf14 H SG CYS 22 H CYS 22 1_555 H SG CYS 96 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf15 H SG CYS 149 H CYS 149 1_555 H SG CYS 204 H CYS 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf16 I SG CYS 22 I CYS 22 1_555 I SG CYS 96 I CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf17 I SG CYS 149 I CYS 149 1_555 I SG CYS 204 I CYS 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf18 J SG CYS 22 J CYS 22 1_555 J SG CYS 96 J CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf19 J SG CYS 149 J CYS 149 1_555 J SG CYS 204 J CYS 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf20 K SG CYS 22 K CYS 22 1_555 K SG CYS 90 K CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf21 K SG CYS 137 K CYS 137 1_555 K SG CYS 196 K CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf22 L SG CYS 22 L CYS 22 1_555 L SG CYS 90 L CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf23 L SG CYS 137 L CYS 137 1_555 L SG CYS 196 L CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf24 M SG CYS 22 M CYS 22 1_555 M SG CYS 90 M CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.456 ? disulf ? disulf25 M SG CYS 137 M CYS 137 1_555 M SG CYS 196 M CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf26 N SG CYS 22 N CYS 22 1_555 N SG CYS 90 N CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf27 O SG CYS 22 O CYS 22 1_555 O SG CYS 90 O CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf28 O SG CYS 137 O CYS 137 1_555 O SG CYS 196 O CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? covale ? covale1 B ND2 ASN 185 B ASN 185 1_555 Y C1 NAG . B NAG 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.464 ? covale ? covale2 C ND2 ASN 185 C ASN 185 1_555 CA C1 NAG . C NAG 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.464 ? covale ? covale3 E ND2 ASN 185 E ASN 185 1_555 JA C1 NAG . E NAG 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.46 ? # _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 459 n n C1 O1 NAG sing 460 n n C1 O5 NAG sing 461 n n C1 H1 NAG sing 462 n n C2 C3 NAG sing 463 n n C2 N2 NAG sing 464 n n C2 H2 NAG sing 465 n n C3 C4 NAG sing 466 n n C3 O3 NAG sing 467 n n C3 H3 NAG sing 468 n n C4 C5 NAG sing 469 n n C4 O4 NAG sing 470 n n C4 H4 NAG sing 471 n n C5 C6 NAG sing 472 n n C5 O5 NAG sing 473 n n C5 H5 NAG sing 474 n n C6 O6 NAG sing 475 n n C6 H61 NAG sing 476 n n C6 H62 NAG sing 477 n n C7 C8 NAG sing 478 n n C7 N2 NAG sing 479 n n C7 O7 NAG doub 480 n n C8 H81 NAG sing 481 n n C8 H82 NAG sing 482 n n C8 H83 NAG sing 483 n n N2 HN2 NAG sing 484 n n O1 HO1 NAG sing 485 n n O3 HO3 NAG sing 486 n n O4 HO4 NAG sing 487 n n O6 HO6 NAG sing 488 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 3RIF _atom_sites.fract_transf_matrix[1][1] 0.006433 _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] 0.006433 _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] 0.001738 _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 P 4 GLU A 1 401 401 GLU GLU . Q 5 IVM A 1 402 1 IVM IVM . R 5 IVM A 1 403 1 IVM IVM . S 6 LMT A 1 404 1 LMT LMT . T 6 LMT A 1 405 1 LMT LMT . U 4 GLU B 1 401 401 GLU GLU . V 7 CL B 1 402 1 CL CL . W 5 IVM B 1 403 1 IVM IVM . X 6 LMT B 1 404 1 LMT LMT . Y 8 NAG B 1 400 400 NAG NAG . Z 9 OCT B 1 405 1 OCT OCT . AA 10 UND B 1 406 1 UND UND . BA 4 GLU C 1 401 401 GLU GLU . CA 8 NAG C 1 400 400 NAG NAG . DA 4 GLU D 1 401 401 GLU GLU . EA 5 IVM D 1 402 1 IVM IVM . FA 9 OCT D 1 403 1 OCT OCT . GA 4 GLU E 1 401 401 GLU GLU . HA 5 IVM E 1 402 1 IVM IVM . IA 9 OCT E 1 403 1 OCT OCT . JA 8 NAG E 1 400 400 NAG NAG . # 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 . . . CA 8 47.838 79.73 56.61 1 132.71 ? C1 NAG 400 C 1 HETATM 2 C C2 NAG . . . CA 8 47.434 79.908 58.079 1 132.15 ? C2 NAG 400 C 1 HETATM 3 C C3 NAG . . . CA 8 47.92 81.231 58.663 1 132.73 ? C3 NAG 400 C 1 HETATM 4 C C4 NAG . . . CA 8 49.407 81.405 58.385 1 134.61 ? C4 NAG 400 C 1 HETATM 5 C C5 NAG . . . CA 8 49.744 81.243 56.9 1 135.08 ? C5 NAG 400 C 1 HETATM 6 C C6 NAG . . . CA 8 51.255 81.109 56.72 1 137.21 ? C6 NAG 400 C 1 HETATM 7 C C7 NAG . . . CA 8 45.398 78.737 58.752 1 130 ? C7 NAG 400 C 1 HETATM 8 C C8 NAG . . . CA 8 43.932 78.857 59.056 1 128.57 ? C8 NAG 400 C 1 HETATM 9 N N2 NAG . . . CA 8 45.986 79.801 58.202 1 130.53 ? N2 NAG 400 C 1 HETATM 10 O O3 NAG . . . CA 8 47.697 81.274 60.06 1 132.59 ? O3 NAG 400 C 1 HETATM 11 O O4 NAG . . . CA 8 49.807 82.687 58.831 1 135.26 ? O4 NAG 400 C 1 HETATM 12 O O5 NAG . . . CA 8 49.17 80.096 56.298 1 134.4 ? O5 NAG 400 C 1 HETATM 13 O O6 NAG . . . CA 8 51.668 79.825 57.142 1 137.81 ? O6 NAG 400 C 1 HETATM 14 O O7 NAG . . . CA 8 46.004 77.695 59.007 1 130.75 ? O7 NAG 400 C 1 # _model_server_stats.io_time_ms 57 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 49 _model_server_stats.query_time_ms 317 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 14 #