data_4KRP # _model_server_result.job_id 0kql1IXwO-8aXcLBRNBvIg _model_server_result.datetime_utc '2024-11-13 18:46:26' _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 4krp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":704}' # _entry.id 4KRP # _exptl.entry_id 4KRP _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 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 99.95 _cell.angle_gamma 90 _cell.entry_id 4KRP _cell.length_a 66.372 _cell.length_b 95.841 _cell.length_c 129.481 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4KRP _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _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 ? 6 I N N ? 6 J N N # _pdbx_entity_branch.entity_id 5 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 5 _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 5 n E NAG 1 E 1 NAG F 3281 NAG 5 n E NAG 2 E 2 NAG A 702 NAG 5 n F NAG 1 F 1 NAG A 705 NAG 5 n F NAG 2 F 2 NAG A 706 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 7 A CYS 7 1_555 A SG CYS 34 A CYS 34 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 A SG CYS 208 A CYS 208 1_555 A SG CYS 216 A CYS 216 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf3 A SG CYS 212 A CYS 212 1_555 A SG CYS 224 A CYS 224 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf4 A SG CYS 227 A CYS 227 1_555 A SG CYS 236 A CYS 236 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf5 A SG CYS 240 A CYS 240 1_555 A SG CYS 267 A CYS 267 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf6 A SG CYS 271 A CYS 271 1_555 A SG CYS 283 A CYS 283 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf7 A SG CYS 287 A CYS 287 1_555 A SG CYS 302 A CYS 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf8 A SG CYS 305 A CYS 305 1_555 A SG CYS 309 A CYS 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf9 A SG CYS 313 A CYS 313 1_555 A SG CYS 338 A CYS 338 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf10 A SG CYS 446 A CYS 446 1_555 A SG CYS 475 A CYS 475 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf11 A SG CYS 482 A CYS 482 1_555 A SG CYS 491 A CYS 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf12 A SG CYS 486 A CYS 486 1_555 A SG CYS 499 A CYS 499 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf13 A SG CYS 502 A CYS 502 1_555 A SG CYS 511 A CYS 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf14 A SG CYS 515 A CYS 515 1_555 A SG CYS 531 A CYS 531 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf15 A SG CYS 534 A CYS 534 1_555 A SG CYS 547 A CYS 547 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf16 A SG CYS 538 A CYS 538 1_555 A SG CYS 555 A CYS 555 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf17 A SG CYS 558 A CYS 558 1_555 A SG CYS 567 A CYS 567 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf18 A SG CYS 571 A CYS 571 1_555 A SG CYS 593 A CYS 593 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf19 A SG CYS 596 A CYS 596 1_555 A SG CYS 604 A CYS 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf20 A SG CYS 600 A CYS 600 1_555 A SG CYS 612 A CYS 612 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf21 B SG CYS 22 B CYS 22 1_555 B SG CYS 96 B CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf22 C SG CYS 23 C CYS 23 1_555 C SG CYS 88 C CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? disulf ? disulf23 C SG CYS 134 C CYS 134 1_555 C SG CYS 194 C CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf24 D SG CYS 22 D CYS 22 1_555 D SG CYS 95 D CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? disulf ? disulf25 D SG CYS 146 D CYS 146 1_555 D SG CYS 202 D CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 A ND2 ASN 328 A ASN 328 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale2 A ND2 ASN 337 A ASN 337 1_555 G C1 NAG . A NAG 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale3 A ND2 ASN 389 A ASN 389 1_555 H C1 NAG . A NAG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.375 ? covale ? covale4 A ND2 ASN 420 A ASN 420 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.242 ? covale ? covale5 A ND2 ASN 504 A ASN 504 1_555 I C1 NAG . A NAG 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale6 D ND2 ASN 88 D ASN 88 1_555 J C1 NAG . D NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale7 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale8 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? # _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 237 n n C1 O1 NAG sing 238 n n C1 O5 NAG sing 239 n n C1 H1 NAG sing 240 n n C2 C3 NAG sing 241 n n C2 N2 NAG sing 242 n n C2 H2 NAG sing 243 n n C3 C4 NAG sing 244 n n C3 O3 NAG sing 245 n n C3 H3 NAG sing 246 n n C4 C5 NAG sing 247 n n C4 O4 NAG sing 248 n n C4 H4 NAG sing 249 n n C5 C6 NAG sing 250 n n C5 O5 NAG sing 251 n n C5 H5 NAG sing 252 n n C6 O6 NAG sing 253 n n C6 H61 NAG sing 254 n n C6 H62 NAG sing 255 n n C7 C8 NAG sing 256 n n C7 N2 NAG sing 257 n n C7 O7 NAG doub 258 n n C8 H81 NAG sing 259 n n C8 H82 NAG sing 260 n n C8 H83 NAG sing 261 n n N2 HN2 NAG sing 262 n n O1 HO1 NAG sing 263 n n O3 HO3 NAG sing 264 n n O4 HO4 NAG sing 265 n n O6 HO6 NAG sing 266 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 4KRP _atom_sites.fract_transf_matrix[1][1] 0.015067 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002643 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010434 _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] 0.007841 _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 1 703 3371 NAG NAG . H 6 NAG A 1 704 704 NAG NAG . I 6 NAG A 1 707 5041 NAG NAG . J 6 NAG D 1 301 881 NAG NAG . K 7 HOH A 1 801 2 HOH HOH . L 7 HOH C 1 301 3 HOH HOH . M 7 HOH D 1 401 1 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 6 33.531 13.409 35.649 1 98.93 ? C1 NAG 704 A 1 HETATM 2 C C2 NAG . . . H 6 35.046 13.523 35.731 1 101.48 ? C2 NAG 704 A 1 HETATM 3 C C3 NAG . . . H 6 35.421 14.155 37.073 1 92.66 ? C3 NAG 704 A 1 HETATM 4 C C4 NAG . . . H 6 34.666 15.476 37.228 1 86.65 ? C4 NAG 704 A 1 HETATM 5 C C5 NAG . . . H 6 33.166 15.205 37.119 1 95.24 ? C5 NAG 704 A 1 HETATM 6 C C6 NAG . . . H 6 32.42 16.527 37.171 1 87.33 ? C6 NAG 704 A 1 HETATM 7 C C7 NAG . . . H 6 36.738 11.923 35.043 1 92.05 ? C7 NAG 704 A 1 HETATM 8 C C8 NAG . . . H 6 37.406 13.072 34.346 1 71.88 ? C8 NAG 704 A 1 HETATM 9 N N2 NAG . . . H 6 35.608 12.19 35.693 1 83.11 ? N2 NAG 704 A 1 HETATM 10 O O3 NAG . . . H 6 36.795 14.456 37.043 1 97.01 ? O3 NAG 704 A 1 HETATM 11 O O4 NAG . . . H 6 34.911 15.965 38.524 1 88.26 ? O4 NAG 704 A 1 HETATM 12 O O5 NAG . . . H 6 32.955 14.686 35.807 1 105.26 ? O5 NAG 704 A 1 HETATM 13 O O6 NAG . . . H 6 32.482 16.944 38.537 1 86.78 ? O6 NAG 704 A 1 HETATM 14 O O7 NAG . . . H 6 37.232 10.797 34.999 1 92.35 ? O7 NAG 704 A 1 HETATM 15 H H1 NAG . . . H 6 33.174 12.749 36.439 1 118.71 ? H1 NAG 704 A 1 HETATM 16 H H2 NAG . . . H 6 35.349 14 34.786 1 121.78 ? H2 NAG 704 A 1 HETATM 17 H H3 NAG . . . H 6 35.297 13.351 37.816 1 111.19 ? H3 NAG 704 A 1 HETATM 18 H H4 NAG . . . H 6 35.161 16.174 36.535 1 103.98 ? H4 NAG 704 A 1 HETATM 19 H H5 NAG . . . H 6 32.918 14.73 38.093 1 114.29 ? H5 NAG 704 A 1 HETATM 20 H H61 NAG . . . H 6 32.738 17.082 36.266 1 104.79 ? H61 NAG 704 A 1 HETATM 21 H H62 NAG . . . H 6 31.37 16.299 36.984 1 104.79 ? H62 NAG 704 A 1 HETATM 22 H H81 NAG . . . H 6 37.124 13.072 33.294 1 86.25 ? H81 NAG 704 A 1 HETATM 23 H H82 NAG . . . H 6 37.095 14.009 34.807 1 86.25 ? H82 NAG 704 A 1 HETATM 24 H H83 NAG . . . H 6 38.488 12.967 34.431 1 86.25 ? H83 NAG 704 A 1 HETATM 25 H HN2 NAG . . . H 6 35.12 11.451 36.178 1 99.73 ? HN2 NAG 704 A 1 HETATM 26 H HO3 NAG . . . H 6 37.277 13.845 37.637 1 116.42 ? HO3 NAG 704 A 1 HETATM 27 H HO4 NAG . . . H 6 35.236 16.888 38.469 1 105.91 ? HO4 NAG 704 A 1 HETATM 28 H HO6 NAG . . . H 6 31.69 17.48 38.752 1 104.14 ? HO6 NAG 704 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 298 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 28 #