data_3I1L # _model_server_result.job_id tmu5PfDsSfQhUdyPHWJ_AA _model_server_result.datetime_utc '2025-07-13 11:17:37' _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 3i1l # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"V","auth_seq_id":5155}' # _entry.id 3I1L # _exptl.entry_id 3I1L _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 16 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 96.02 _cell.angle_gamma 90 _cell.entry_id 3I1L _cell.length_a 156.03 _cell.length_b 103.69 _cell.length_c 97.07 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3I1L _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 1' # 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 dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 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,D,E,F,G,H,I,J,Z 1 1,2 B,C,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,AA,BA 2 1 # 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' 2_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 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 ? 4 F N N ? 4 G N N ? 4 H N N ? 4 I N N ? 4 J N N ? 4 M N N ? 4 N N N ? 4 O N N ? 4 P N N ? 4 Q N N ? 4 R N N ? 4 U N N ? 4 V N N ? 4 W N N ? 4 X N N ? 4 Y 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 27 A CYS 50 1_555 A SG CYS 43 A CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf2 A SG CYS 74 A CYS 97 1_555 A SG CYS 122 A CYS 145 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf3 A SG CYS 94 A CYS 117 1_555 A SG CYS 142 A CYS 165 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf4 A SG CYS 181 A CYS 204 1_555 A SG CYS 258 A CYS 281 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf5 A SG CYS 189 A CYS 212 1_555 A SG CYS 231 A CYS 254 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf6 A SG CYS 195 A CYS 218 1_555 A SG CYS 202 A CYS 225 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf7 A SG CYS 289 A CYS 312 1_555 A SG CYS 294 A CYS 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf8 A SG CYS 331 A CYS 354 1_555 A SG CYS 356 A CYS 379 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf9 B SG CYS 27 B CYS 50 1_555 B SG CYS 43 B CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf10 B SG CYS 74 B CYS 97 1_555 B SG CYS 122 B CYS 145 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf11 B SG CYS 94 B CYS 117 1_555 B SG CYS 142 B CYS 165 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf12 B SG CYS 181 B CYS 204 1_555 B SG CYS 258 B CYS 281 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf13 B SG CYS 189 B CYS 212 1_555 B SG CYS 231 B CYS 254 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf14 B SG CYS 195 B CYS 218 1_555 B SG CYS 202 B CYS 225 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf15 B SG CYS 289 B CYS 312 1_555 B SG CYS 294 B CYS 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf16 B SG CYS 331 B CYS 354 1_555 B SG CYS 356 B CYS 379 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf17 C SG CYS 27 C CYS 50 1_555 C SG CYS 43 C CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf18 C SG CYS 74 C CYS 97 1_555 C SG CYS 122 C CYS 145 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf19 C SG CYS 94 C CYS 117 1_555 C SG CYS 142 C CYS 165 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf20 C SG CYS 181 C CYS 204 1_555 C SG CYS 258 C CYS 281 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf21 C SG CYS 189 C CYS 212 1_555 C SG CYS 231 C CYS 254 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf22 C SG CYS 195 C CYS 218 1_555 C SG CYS 202 C CYS 225 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf23 C SG CYS 289 C CYS 312 1_555 C SG CYS 294 C CYS 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf24 C SG CYS 331 C CYS 354 1_555 C SG CYS 356 C CYS 379 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? covale ? covale1 A ND2 ASN 62 A ASN 85 1_555 J C1 NAG . A NAG 5158 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale2 A ND2 ASN 91 A ASN 114 1_555 F C1 NAG . A NAG 5154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale3 A ND2 ASN 139 A ASN 162 1_555 G C1 NAG . A NAG 5155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale4 A ND2 ASN 221 A ASN 244 1_555 H C1 NAG . A NAG 5156 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale5 A ND2 ASN 298 A ASN 321 1_555 I C1 NAG . A NAG 5157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale6 B ND2 ASN 62 B ASN 85 1_555 Q C1 NAG . B NAG 5158 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale7 B ND2 ASN 91 B ASN 114 1_555 M C1 NAG . B NAG 5154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale8 B ND2 ASN 133 B ASN 156 1_555 R C1 NAG . B NAG 5159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale9 B ND2 ASN 139 B ASN 162 1_555 N C1 NAG . B NAG 5155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale10 B ND2 ASN 221 B ASN 244 1_555 O C1 NAG . B NAG 5156 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale11 B ND2 ASN 298 B ASN 321 1_555 P C1 NAG . B NAG 5157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale12 C ND2 ASN 62 C ASN 85 1_555 Y C1 NAG . C NAG 5158 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale13 C ND2 ASN 91 C ASN 114 1_555 U C1 NAG . C NAG 5154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale14 C ND2 ASN 139 C ASN 162 1_555 V C1 NAG . C NAG 5155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale15 C ND2 ASN 221 C ASN 244 1_555 W C1 NAG . C NAG 5156 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale16 C ND2 ASN 298 C ASN 321 1_555 X C1 NAG . C NAG 5157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? # _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 244 n n C1 O1 NAG sing 245 n n C1 O5 NAG sing 246 n n C1 H1 NAG sing 247 n n C2 C3 NAG sing 248 n n C2 N2 NAG sing 249 n n C2 H2 NAG sing 250 n n C3 C4 NAG sing 251 n n C3 O3 NAG sing 252 n n C3 H3 NAG sing 253 n n C4 C5 NAG sing 254 n n C4 O4 NAG sing 255 n n C4 H4 NAG sing 256 n n C5 C6 NAG sing 257 n n C5 O5 NAG sing 258 n n C5 H5 NAG sing 259 n n C6 O6 NAG sing 260 n n C6 H61 NAG sing 261 n n C6 H62 NAG sing 262 n n C7 C8 NAG sing 263 n n C7 N2 NAG sing 264 n n C7 O7 NAG doub 265 n n C8 H81 NAG sing 266 n n C8 H82 NAG sing 267 n n C8 H83 NAG sing 268 n n N2 HN2 NAG sing 269 n n O1 HO1 NAG sing 270 n n O3 HO3 NAG sing 271 n n O4 HO4 NAG sing 272 n n O6 HO6 NAG sing 273 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 3I1L _atom_sites.fract_transf_matrix[1][1] 0.006409 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000676 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009644 _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] 0.010359 _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 D 2 SIO A 1 1001 1001 SIO SIO . E 3 ACY A 1 2001 2001 ACY ACY . F 4 NAG A 1 5154 5154 NAG NAG . G 4 NAG A 1 5155 5155 NAG NAG . H 4 NAG A 1 5156 5156 NAG NAG . I 4 NAG A 1 5157 5157 NAG NAG . J 4 NAG A 1 5158 5158 NAG NAG . K 2 SIO B 1 1001 1001 SIO SIO . L 3 ACY B 1 2001 2001 ACY ACY . M 4 NAG B 1 5154 5154 NAG NAG . N 4 NAG B 1 5155 5155 NAG NAG . O 4 NAG B 1 5156 5156 NAG NAG . P 4 NAG B 1 5157 5157 NAG NAG . Q 4 NAG B 1 5158 5158 NAG NAG . R 4 NAG B 1 5159 5159 NAG NAG . S 2 SIO C 1 1001 1001 SIO SIO . T 3 ACY C 1 2001 2001 ACY ACY . U 4 NAG C 1 5154 5154 NAG NAG . V 4 NAG C 1 5155 5155 NAG NAG . W 4 NAG C 1 5156 5156 NAG NAG . X 4 NAG C 1 5157 5157 NAG NAG . Y 4 NAG C 1 5158 5158 NAG NAG . Z 5 HOH A 1 4 4 HOH HOH . Z 5 HOH A 2 9 9 HOH HOH . Z 5 HOH A 3 11 11 HOH HOH . AA 5 HOH B 1 2 2 HOH HOH . AA 5 HOH B 2 5 5 HOH HOH . AA 5 HOH B 3 8 8 HOH HOH . BA 5 HOH C 1 1 1 HOH HOH . BA 5 HOH C 2 3 3 HOH HOH . BA 5 HOH C 3 6 6 HOH HOH . BA 5 HOH C 4 7 7 HOH HOH . BA 5 HOH C 5 10 10 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 . . . V 4 -67.397 -24.727 29.341 1 50.08 ? C1 NAG 5155 C 1 HETATM 2 C C2 NAG . . . V 4 -68.639 -25.529 29.818 1 54.7 ? C2 NAG 5155 C 1 HETATM 3 C C3 NAG . . . V 4 -68.345 -26.451 31.022 1 55.79 ? C3 NAG 5155 C 1 HETATM 4 C C4 NAG . . . V 4 -67.041 -27.225 30.804 1 56.42 ? C4 NAG 5155 C 1 HETATM 5 C C5 NAG . . . V 4 -65.96 -26.139 30.664 1 55.48 ? C5 NAG 5155 C 1 HETATM 6 C C6 NAG . . . V 4 -64.511 -26.619 30.78 1 55.63 ? C6 NAG 5155 C 1 HETATM 7 C C7 NAG . . . V 4 -70.472 -23.884 29.375 1 57.15 ? C7 NAG 5155 C 1 HETATM 8 C C8 NAG . . . V 4 -71.558 -23.087 30.041 1 57.28 ? C8 NAG 5155 C 1 HETATM 9 N N2 NAG . . . V 4 -69.744 -24.656 30.198 1 55.33 ? N2 NAG 5155 C 1 HETATM 10 O O3 NAG . . . V 4 -69.414 -27.334 31.3 1 56.28 ? O3 NAG 5155 C 1 HETATM 11 O O4 NAG . . . V 4 -66.791 -28.164 31.842 1 57.25 ? O4 NAG 5155 C 1 HETATM 12 O O5 NAG . . . V 4 -66.187 -25.482 29.424 1 53.06 ? O5 NAG 5155 C 1 HETATM 13 O O6 NAG . . . V 4 -64.369 -27.875 30.159 1 56.93 ? O6 NAG 5155 C 1 HETATM 14 O O7 NAG . . . V 4 -70.314 -23.779 28.148 1 57.68 ? O7 NAG 5155 C 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 568 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #