data_3B2V # _model_server_result.job_id ME856WvTaQXQ0zzKPl4f4w _model_server_result.datetime_utc '2024-11-22 10:07:38' _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 3b2v # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":5041}' # _entry.id 3B2V # _exptl.entry_id 3B2V _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 6 _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 3B2V _cell.length_a 68.743 _cell.length_b 266.242 _cell.length_c 156.381 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3B2V _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _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 ? 6 G N N ? 6 H N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 4 oligosaccharide 5 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 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 4 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . 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 4 n D NAG 1 B 1 NAG E 3281 NAG 4 n D NAG 2 B 2 NAG E 3282 NAG 4 n D BMA 3 B 3 BMA E 3283 MAN 5 n E NAG 1 C 1 NAG F 3371 NAG 5 n E NAG 2 C 2 NAG F 3372 NAG 5 n F NAG 1 D 1 NAG J 4201 NAG 5 n F NAG 2 D 2 NAG J 4202 NAG # 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 23 L CYS 23 1_555 A SG CYS 88 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? disulf ? disulf2 A SG CYS 134 L CYS 134 1_555 A SG CYS 194 L CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf3 B SG CYS 22 H CYS 22 1_555 B SG CYS 97 H CYS 97 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf4 B SG CYS 148 H CYS 148 1_555 B SG CYS 204 H CYS 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf5 C SG CYS 240 A CYS 240 1_555 C SG CYS 267 A CYS 267 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? disulf ? disulf6 C SG CYS 271 A CYS 271 1_555 C SG CYS 283 A CYS 283 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf7 C SG CYS 287 A CYS 287 1_555 C SG CYS 302 A CYS 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? disulf ? disulf8 C SG CYS 305 A CYS 305 1_555 C SG CYS 309 A CYS 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.112 ? disulf ? disulf9 C SG CYS 313 A CYS 313 1_555 C SG CYS 338 A CYS 338 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? disulf ? disulf10 C SG CYS 446 A CYS 446 1_555 C SG CYS 475 A CYS 475 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.1 ? disulf ? disulf11 C SG CYS 482 A CYS 482 1_555 C SG CYS 491 A CYS 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf12 C SG CYS 486 A CYS 486 1_555 C SG CYS 499 A CYS 499 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf13 C SG CYS 502 A CYS 502 1_555 C SG CYS 511 A CYS 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.1 ? disulf ? disulf14 C SG CYS 515 A CYS 515 1_555 C SG CYS 531 A CYS 531 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? disulf ? disulf15 C SG CYS 534 A CYS 534 1_555 C SG CYS 547 A CYS 547 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf16 C SG CYS 538 A CYS 538 1_555 C SG CYS 555 A CYS 555 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf17 C SG CYS 558 A CYS 558 1_555 C SG CYS 567 A CYS 567 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf18 C SG CYS 571 A CYS 571 1_555 C SG CYS 593 A CYS 593 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf19 C SG CYS 596 A CYS 596 1_555 C SG CYS 604 A CYS 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf20 C SG CYS 600 A CYS 600 1_555 C SG CYS 612 A CYS 612 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? covale ? covale1 C ND2 ASN 328 A ASN 328 1_555 D C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale2 C ND2 ASN 337 A ASN 337 1_555 E C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.413 ? covale ? covale3 C ND2 ASN 389 A ASN 389 1_555 G C1 NAG . A NAG 3891 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale4 C ND2 ASN 420 A ASN 420 1_555 F C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.462 ? covale ? covale5 C ND2 ASN 504 A ASN 504 1_555 H C1 NAG . A NAG 5041 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale6 D O4 NAG . B NAG 1 1_555 D C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale7 D O4 NAG . B NAG 2 1_555 D C1 BMA . B BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale8 E O4 NAG . C NAG 1 1_555 E C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.464 ? covale ? covale9 F O4 NAG . D NAG 1 1_555 F C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.48 ? # _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 259 n n C1 O1 NAG sing 260 n n C1 O5 NAG sing 261 n n C1 H1 NAG sing 262 n n C2 C3 NAG sing 263 n n C2 N2 NAG sing 264 n n C2 H2 NAG sing 265 n n C3 C4 NAG sing 266 n n C3 O3 NAG sing 267 n n C3 H3 NAG sing 268 n n C4 C5 NAG sing 269 n n C4 O4 NAG sing 270 n n C4 H4 NAG sing 271 n n C5 C6 NAG sing 272 n n C5 O5 NAG sing 273 n n C5 H5 NAG sing 274 n n C6 O6 NAG sing 275 n n C6 H61 NAG sing 276 n n C6 H62 NAG sing 277 n n C7 C8 NAG sing 278 n n C7 N2 NAG sing 279 n n C7 O7 NAG doub 280 n n C8 H81 NAG sing 281 n n C8 H82 NAG sing 282 n n C8 H83 NAG sing 283 n n N2 HN2 NAG sing 284 n n O1 HO1 NAG sing 285 n n O3 HO3 NAG sing 286 n n O4 HO4 NAG sing 287 n n O6 HO6 NAG sing 288 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 3B2V _atom_sites.fract_transf_matrix[1][1] 0.014547 _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] 0.003756 _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] 0.006395 _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 6 NAG A 1 3891 3891 NAG NAG . H 6 NAG A 1 5041 5041 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 . . . H 6 37.383 71.365 8.782 1 40.31 ? C1 NAG 5041 A 1 HETATM 2 C C2 NAG . . . H 6 37.129 72.869 8.823 1 42.09 ? C2 NAG 5041 A 1 HETATM 3 C C3 NAG . . . H 6 38.348 73.767 8.495 1 42.3 ? C3 NAG 5041 A 1 HETATM 4 C C4 NAG . . . H 6 39.724 73.101 8.702 1 43.69 ? C4 NAG 5041 A 1 HETATM 5 C C5 NAG . . . H 6 39.623 71.605 8.302 1 42.43 ? C5 NAG 5041 A 1 HETATM 6 C C6 NAG . . . H 6 40.955 70.822 8.202 1 42.57 ? C6 NAG 5041 A 1 HETATM 7 C C7 NAG . . . H 6 35.902 72.917 6.645 1 44.76 ? C7 NAG 5041 A 1 HETATM 8 C C8 NAG . . . H 6 34.659 73.375 5.905 1 45.15 ? C8 NAG 5041 A 1 HETATM 9 N N2 NAG . . . H 6 35.979 73.162 7.965 1 43.4 ? N2 NAG 5041 A 1 HETATM 10 O O3 NAG . . . H 6 38.313 74.911 9.306 1 39.32 ? O3 NAG 5041 A 1 HETATM 11 O O4 NAG . . . H 6 40.791 73.855 8.091 1 45.72 ? O4 NAG 5041 A 1 HETATM 12 O O5 NAG . . . H 6 38.68 71.033 9.211 1 39.42 ? O5 NAG 5041 A 1 # _model_server_stats.io_time_ms 55 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 551 _model_server_stats.encode_time_ms 13 _model_server_stats.element_count 12 #