data_6LVX # _model_server_result.job_id -WoXhZ6GvENnE7TNgWRcQg _model_server_result.datetime_utc '2024-11-28 17:16:56' _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 6lvx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"T","auth_seq_id":1005}' # _entry.id 6LVX # _exptl.entry_id 6LVX _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 11 _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 6LVX _cell.length_a 98.754 _cell.length_b 138.504 _cell.length_c 148.462 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6LVX _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X _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 ? 4 E N N ? 4 F N N ? 4 G N N ? 4 H N N ? 4 I N N ? 4 J N N ? 4 K N N ? 4 Q N N ? 4 R N N ? 4 S N N ? 4 T N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order 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 2 n C NAG 1 C 1 NAG D 905 NAG 2 n C NAG 2 C 2 NAG D 909 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 14 A CYS 36 1_555 A SG CYS 29 A CYS 51 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf2 A SG CYS 76 A CYS 98 1_555 A SG CYS 453 A CYS 475 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf3 A SG CYS 78 A CYS 100 1_555 A SG CYS 90 A CYS 112 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf4 A SG CYS 161 A CYS 183 1_555 A SG CYS 167 A CYS 189 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf5 A SG CYS 238 A CYS 260 1_555 A SG CYS 251 A CYS 273 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf6 A SG CYS 241 A CYS 263 1_555 A SG CYS 248 A CYS 270 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf7 A SG CYS 469 A CYS 491 1_555 A SG CYS 499 A CYS 521 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf8 A SG CYS 765 A CYS 787 1_555 A SG CYS 792 A CYS 814 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.002 ? disulf ? disulf9 A SG CYS 767 A CYS 789 1_555 A SG CYS 811 A CYS 833 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf10 B SG CYS 14 B CYS 36 1_555 B SG CYS 29 B CYS 51 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? disulf ? disulf11 B SG CYS 76 B CYS 98 1_555 B SG CYS 453 B CYS 475 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf12 B SG CYS 78 B CYS 100 1_555 B SG CYS 90 B CYS 112 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf13 B SG CYS 161 B CYS 183 1_555 B SG CYS 167 B CYS 189 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? disulf ? disulf14 B SG CYS 238 B CYS 260 1_555 B SG CYS 251 B CYS 273 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf15 B SG CYS 241 B CYS 263 1_555 B SG CYS 248 B CYS 270 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf16 B SG CYS 469 B CYS 491 1_555 B SG CYS 499 B CYS 521 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf17 B SG CYS 765 B CYS 787 1_555 B SG CYS 792 B CYS 814 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf18 B SG CYS 767 B CYS 789 1_555 B SG CYS 811 B CYS 833 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? covale ? covale1 A ND2 ASN 47 A ASN 69 1_555 H C1 NAG . A NAG 1005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.458 ? covale ? covale2 A ND2 ASN 193 A ASN 215 1_555 E C1 NAG . A NAG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.458 ? covale ? covale3 A ND2 ASN 391 A ASN 413 1_555 G C1 NAG . A NAG 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.423 ? covale ? covale4 A ND2 ASN 501 A ASN 523 1_555 F C1 NAG . A NAG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale5 A ND2 ASN 568 A ASN 590 1_555 K C1 NAG . A NAG 1008 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale6 A ND2 ASN 657 A ASN 679 1_555 J C1 NAG . A NAG 1007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale7 A ND2 ASN 698 A ASN 720 1_555 I C1 NAG . A NAG 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale8 B ND2 ASN 47 B ASN 69 1_555 R C1 NAG . B NAG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.462 ? covale ? covale9 B ND2 ASN 193 B ASN 215 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.421 ? covale ? covale10 B ND2 ASN 501 B ASN 523 1_555 Q C1 NAG . B NAG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale11 B ND2 ASN 512 B ASN 534 1_555 S C1 NAG . B NAG 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale12 B ND2 ASN 568 B ASN 590 1_555 T C1 NAG . B NAG 1005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.425 ? covale ? covale13 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 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 281 n n C1 O1 NAG sing 282 n n C1 O5 NAG sing 283 n n C1 H1 NAG sing 284 n n C2 C3 NAG sing 285 n n C2 N2 NAG sing 286 n n C2 H2 NAG sing 287 n n C3 C4 NAG sing 288 n n C3 O3 NAG sing 289 n n C3 H3 NAG sing 290 n n C4 C5 NAG sing 291 n n C4 O4 NAG sing 292 n n C4 H4 NAG sing 293 n n C5 C6 NAG sing 294 n n C5 O5 NAG sing 295 n n C5 H5 NAG sing 296 n n C6 O6 NAG sing 297 n n C6 H61 NAG sing 298 n n C6 H62 NAG sing 299 n n C7 C8 NAG sing 300 n n C7 N2 NAG sing 301 n n C7 O7 NAG doub 302 n n C8 H81 NAG sing 303 n n C8 H82 NAG sing 304 n n C8 H83 NAG sing 305 n n N2 HN2 NAG sing 306 n n O1 HO1 NAG sing 307 n n O3 HO3 NAG sing 308 n n O4 HO4 NAG sing 309 n n O6 HO6 NAG sing 310 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 6LVX _atom_sites.fract_transf_matrix[1][1] 0.010126 _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] 0.00722 _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] 0.006736 _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 3 EWL A 1 1001 1 EWL sdf . E 4 NAG A 1 1002 903 NAG NAG . F 4 NAG A 1 1003 904 NAG NAG . G 4 NAG A 1 1004 907 NAG NAG . H 4 NAG A 1 1005 910 NAG NAG . I 4 NAG A 1 1006 911 NAG NAG . J 4 NAG A 1 1007 914 NAG NAG . K 4 NAG A 1 1008 915 NAG NAG . L 5 SO4 A 1 1009 1 SO4 SO4 . M 5 SO4 A 1 1010 1 SO4 SO4 . N 5 SO4 A 1 1011 1 SO4 SO4 . O 5 SO4 A 1 1012 1 SO4 SO4 . P 3 EWL B 1 1001 2 EWL sdf . Q 4 NAG B 1 1002 906 NAG NAG . R 4 NAG B 1 1003 908 NAG NAG . S 4 NAG B 1 1004 912 NAG NAG . T 4 NAG B 1 1005 913 NAG NAG . U 5 SO4 B 1 1006 1 SO4 SO4 . V 5 SO4 B 1 1007 1 SO4 SO4 . W 6 HOH A 1 1101 29 HOH HOH . W 6 HOH A 2 1102 32 HOH HOH . W 6 HOH A 3 1103 24 HOH HOH . W 6 HOH A 4 1104 23 HOH HOH . W 6 HOH A 5 1105 12 HOH HOH . W 6 HOH A 6 1106 41 HOH HOH . W 6 HOH A 7 1107 17 HOH HOH . W 6 HOH A 8 1108 34 HOH HOH . W 6 HOH A 9 1109 22 HOH HOH . W 6 HOH A 10 1110 14 HOH HOH . W 6 HOH A 11 1111 31 HOH HOH . W 6 HOH A 12 1112 26 HOH HOH . W 6 HOH A 13 1113 9 HOH HOH . W 6 HOH A 14 1114 6 HOH HOH . W 6 HOH A 15 1115 21 HOH HOH . W 6 HOH A 16 1116 46 HOH HOH . W 6 HOH A 17 1117 1 HOH HOH . W 6 HOH A 18 1118 27 HOH HOH . W 6 HOH A 19 1119 7 HOH HOH . W 6 HOH A 20 1120 10 HOH HOH . W 6 HOH A 21 1121 8 HOH HOH . W 6 HOH A 22 1122 28 HOH HOH . W 6 HOH A 23 1123 13 HOH HOH . W 6 HOH A 24 1124 2 HOH HOH . W 6 HOH A 25 1125 43 HOH HOH . W 6 HOH A 26 1126 39 HOH HOH . W 6 HOH A 27 1127 30 HOH HOH . W 6 HOH A 28 1128 33 HOH HOH . W 6 HOH A 29 1129 11 HOH HOH . X 6 HOH B 1 1101 40 HOH HOH . X 6 HOH B 2 1102 5 HOH HOH . X 6 HOH B 3 1103 4 HOH HOH . X 6 HOH B 4 1104 37 HOH HOH . X 6 HOH B 5 1105 3 HOH HOH . X 6 HOH B 6 1106 25 HOH HOH . X 6 HOH B 7 1107 44 HOH HOH . X 6 HOH B 8 1108 38 HOH HOH . X 6 HOH B 9 1109 20 HOH HOH . X 6 HOH B 10 1110 15 HOH HOH . X 6 HOH B 11 1111 16 HOH HOH . X 6 HOH B 12 1112 19 HOH HOH . X 6 HOH B 13 1113 36 HOH HOH . X 6 HOH B 14 1114 18 HOH HOH . X 6 HOH B 15 1115 45 HOH HOH . X 6 HOH B 16 1116 42 HOH HOH . X 6 HOH B 17 1117 35 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 . . . T 4 -2.034 -5.553 48.102 1 54.55 ? C1 NAG 1005 B 1 HETATM 2 C C2 NAG . . . T 4 -1.949 -6.236 49.46 1 54.78 ? C2 NAG 1005 B 1 HETATM 3 C C3 NAG . . . T 4 -3.214 -7.078 49.552 1 56.8 ? C3 NAG 1005 B 1 HETATM 4 C C4 NAG . . . T 4 -4.486 -6.212 49.547 1 62.88 ? C4 NAG 1005 B 1 HETATM 5 C C5 NAG . . . T 4 -4.424 -4.978 48.625 1 67.79 ? C5 NAG 1005 B 1 HETATM 6 C C6 NAG . . . T 4 -4.266 -3.623 49.341 1 72.35 ? C6 NAG 1005 B 1 HETATM 7 C C7 NAG . . . T 4 0.522 -6.509 49.616 1 50.92 ? C7 NAG 1005 B 1 HETATM 8 C C8 NAG . . . T 4 1.712 -7.422 49.725 1 47.57 ? C8 NAG 1005 B 1 HETATM 9 N N2 NAG . . . T 4 -0.721 -7.044 49.561 1 51.6 ? N2 NAG 1005 B 1 HETATM 10 O O3 NAG . . . T 4 -3.159 -7.883 50.714 1 51.38 ? O3 NAG 1005 B 1 HETATM 11 O O4 NAG . . . T 4 -5.569 -7.039 49.107 1 61.11 ? O4 NAG 1005 B 1 HETATM 12 O O5 NAG . . . T 4 -3.36 -5.119 47.679 1 61.07 ? O5 NAG 1005 B 1 HETATM 13 O O6 NAG . . . T 4 -4.181 -2.571 48.352 1 75.86 ? O6 NAG 1005 B 1 HETATM 14 O O7 NAG . . . T 4 0.726 -5.305 49.599 1 54 ? O7 NAG 1005 B 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 28 _model_server_stats.query_time_ms 320 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #