data_4PLM # _model_server_result.job_id cNdqKeJDvR57L4hzAlp8MQ _model_server_result.datetime_utc '2024-11-28 03:34:14' _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 4plm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":502}' # _entry.id 4PLM # _exptl.entry_id 4PLM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 2 _entity.src_method syn _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 120 _cell.entry_id 4PLM _cell.length_a 62.627 _cell.length_b 62.627 _cell.length_c 269.788 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4PLM _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 32 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 ? monomeric 1 author_defined_assembly 1 PISA dimeric 2 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,B,C,D,E,F,G,H,I 1 1 A,B,C,D,E,F,G,H,I 2 1,2 # 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' 6_555 -x,-x+y,-z+2/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 179.858667 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 B N N ? 2 C N N ? 2 D 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 18 A CYS 43 1_555 A SG CYS 28 A CYS 53 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf2 A SG CYS 47 A CYS 72 1_555 A SG CYS 71 A CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? disulf ? disulf3 A SG CYS 55 A CYS 80 1_555 A SG CYS 68 A CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 A SG CYS 96 A CYS 121 1_555 A SG CYS 129 A CYS 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? disulf ? disulf5 A SG CYS 158 A CYS 183 1_555 A SG CYS 180 A CYS 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf6 A SG CYS 262 A CYS 287 1_555 A SG CYS 271 A CYS 296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf7 A SG CYS 264 A CYS 289 1_555 A SG CYS 281 A CYS 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf8 A SG CYS 283 A CYS 308 1_555 A SG CYS 292 A CYS 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf9 A SG CYS 295 A CYS 320 1_555 A SG CYS 315 A CYS 340 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf10 A SG CYS 318 A CYS 343 1_555 A SG CYS 327 A CYS 352 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf11 A SG CYS 320 A CYS 345 1_555 A SG CYS 345 A CYS 370 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf12 A SG CYS 348 A CYS 373 1_555 A SG CYS 357 A CYS 382 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf13 A SG CYS 360 A CYS 385 1_555 A SG CYS 378 A CYS 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? disulf ? disulf14 A SG CYS 381 A CYS 406 1_555 A SG CYS 393 A CYS 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf15 A SG CYS 383 A CYS 408 1_555 A SG CYS 400 A CYS 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf16 A SG CYS 402 A CYS 427 1_555 A SG CYS 411 A CYS 436 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf17 A SG CYS 414 A CYS 439 1_555 A SG CYS 428 A CYS 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? covale ? covale1 A ND2 ASN 72 A ASN 97 1_555 B C1 NAG . A NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.463 ? covale ? covale2 A ND2 ASN 93 A ASN 118 1_555 C C1 NAG . A NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale3 A ND2 ASN 108 A ASN 133 1_555 D C1 NAG . A NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? metalc ? metalc1 A O PHE 84 A PHE 109 1_555 E CA CA . A CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.389 ? metalc ? metalc2 A OD1 ASP 87 A ASP 112 1_555 E CA CA . A CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? metalc ? metalc3 A O THR 95 A THR 120 1_555 E CA CA . A CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.564 ? metalc ? metalc4 A OG1 THR 95 A THR 120 1_555 E CA CA . A CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.916 ? metalc ? metalc5 A OE1 GLN 98 A GLN 123 1_555 H MG MG . A MG 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.901 ? metalc ? metalc6 A O SER 254 A SER 279 1_555 E CA CA . A CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc7 E CA CA . A CA 504 1_555 I O HOH . A HOH 656 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.382 ? # _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 4PLM _atom_sites.fract_transf_matrix[1][1] 0.015968 _atom_sites.fract_transf_matrix[1][2] 0.009219 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018438 _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] 0.003707 _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 B 2 NAG A 1 501 971 NAG NAG . C 2 NAG A 1 502 1181 NAG NAG . D 2 NAG A 1 503 1331 NAG NAG . E 3 CA A 1 504 1 CA CA . F 4 CL A 1 505 1 CL CL . G 4 CL A 1 506 2 CL CL . H 5 MG A 1 507 1 MG MG . I 6 HOH A 1 601 67 HOH HOH . I 6 HOH A 2 602 11 HOH HOH . I 6 HOH A 3 603 65 HOH HOH . I 6 HOH A 4 604 81 HOH HOH . I 6 HOH A 5 605 28 HOH HOH . I 6 HOH A 6 606 2 HOH HOH . I 6 HOH A 7 607 8 HOH HOH . I 6 HOH A 8 608 15 HOH HOH . I 6 HOH A 9 609 9 HOH HOH . I 6 HOH A 10 610 22 HOH HOH . I 6 HOH A 11 611 79 HOH HOH . I 6 HOH A 12 612 80 HOH HOH . I 6 HOH A 13 613 25 HOH HOH . I 6 HOH A 14 614 7 HOH HOH . I 6 HOH A 15 615 17 HOH HOH . I 6 HOH A 16 616 58 HOH HOH . I 6 HOH A 17 617 27 HOH HOH . I 6 HOH A 18 618 72 HOH HOH . I 6 HOH A 19 619 45 HOH HOH . I 6 HOH A 20 620 78 HOH HOH . I 6 HOH A 21 621 57 HOH HOH . I 6 HOH A 22 622 77 HOH HOH . I 6 HOH A 23 623 76 HOH HOH . I 6 HOH A 24 624 66 HOH HOH . I 6 HOH A 25 625 30 HOH HOH . I 6 HOH A 26 626 52 HOH HOH . I 6 HOH A 27 627 1 HOH HOH . I 6 HOH A 28 628 3 HOH HOH . I 6 HOH A 29 629 4 HOH HOH . I 6 HOH A 30 630 5 HOH HOH . I 6 HOH A 31 631 6 HOH HOH . I 6 HOH A 32 632 10 HOH HOH . I 6 HOH A 33 633 12 HOH HOH . I 6 HOH A 34 634 14 HOH HOH . I 6 HOH A 35 635 16 HOH HOH . I 6 HOH A 36 636 18 HOH HOH . I 6 HOH A 37 637 19 HOH HOH . I 6 HOH A 38 638 20 HOH HOH . I 6 HOH A 39 639 21 HOH HOH . I 6 HOH A 40 640 23 HOH HOH . I 6 HOH A 41 641 24 HOH HOH . I 6 HOH A 42 642 26 HOH HOH . I 6 HOH A 43 643 29 HOH HOH . I 6 HOH A 44 644 31 HOH HOH . I 6 HOH A 45 645 32 HOH HOH . I 6 HOH A 46 646 33 HOH HOH . I 6 HOH A 47 647 34 HOH HOH . I 6 HOH A 48 648 35 HOH HOH . I 6 HOH A 49 649 37 HOH HOH . I 6 HOH A 50 650 38 HOH HOH . I 6 HOH A 51 651 39 HOH HOH . I 6 HOH A 52 652 41 HOH HOH . I 6 HOH A 53 653 42 HOH HOH . I 6 HOH A 54 654 44 HOH HOH . I 6 HOH A 55 655 47 HOH HOH . I 6 HOH A 56 656 48 HOH HOH . I 6 HOH A 57 657 49 HOH HOH . I 6 HOH A 58 658 50 HOH HOH . I 6 HOH A 59 659 51 HOH HOH . I 6 HOH A 60 660 53 HOH HOH . I 6 HOH A 61 661 54 HOH HOH . I 6 HOH A 62 662 56 HOH HOH . I 6 HOH A 63 663 59 HOH HOH . I 6 HOH A 64 664 60 HOH HOH . I 6 HOH A 65 665 61 HOH HOH . I 6 HOH A 66 666 63 HOH HOH . I 6 HOH A 67 667 64 HOH HOH . I 6 HOH A 68 668 68 HOH HOH . I 6 HOH A 69 669 69 HOH HOH . I 6 HOH A 70 670 70 HOH HOH . I 6 HOH A 71 671 71 HOH HOH . I 6 HOH A 72 672 73 HOH HOH . I 6 HOH A 73 673 75 HOH HOH . I 6 HOH A 74 674 82 HOH HOH . I 6 HOH A 75 675 83 HOH HOH . I 6 HOH A 76 676 84 HOH HOH . I 6 HOH A 77 677 85 HOH HOH . I 6 HOH A 78 678 86 HOH HOH . I 6 HOH A 79 679 87 HOH HOH . I 6 HOH A 80 680 90 HOH HOH . I 6 HOH A 81 681 91 HOH HOH . I 6 HOH A 82 682 92 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 . . . C 2 -17.523 6.211 4.49 1 108.33 ? C1 NAG 502 A 1 HETATM 2 C C2 NAG . . . C 2 -16.722 6.683 3.277 1 120.14 ? C2 NAG 502 A 1 HETATM 3 C C3 NAG . . . C 2 -15.347 6.024 3.279 1 125.98 ? C3 NAG 502 A 1 HETATM 4 C C4 NAG . . . C 2 -14.626 6.328 4.586 1 126.85 ? C4 NAG 502 A 1 HETATM 5 C C5 NAG . . . C 2 -15.487 5.896 5.777 1 120.5 ? C5 NAG 502 A 1 HETATM 6 C C6 NAG . . . C 2 -14.901 6.289 7.115 1 111.32 ? C6 NAG 502 A 1 HETATM 7 C C7 NAG . . . C 2 -17.88 7.391 1.235 1 129.77 ? C7 NAG 502 A 1 HETATM 8 C C8 NAG . . . C 2 -18.572 6.944 -0.019 1 128.19 ? C8 NAG 502 A 1 HETATM 9 N N2 NAG . . . C 2 -17.421 6.418 2.032 1 125.73 ? N2 NAG 502 A 1 HETATM 10 O O3 NAG . . . C 2 -14.585 6.487 2.169 1 129.89 ? O3 NAG 502 A 1 HETATM 11 O O4 NAG . . . C 2 -13.373 5.651 4.621 1 129.24 ? O4 NAG 502 A 1 HETATM 12 O O5 NAG . . . C 2 -16.789 6.506 5.702 1 118.44 ? O5 NAG 502 A 1 HETATM 13 O O6 NAG . . . C 2 -13.481 6.343 7.081 1 106.6 ? O6 NAG 502 A 1 HETATM 14 O O7 NAG . . . C 2 -17.746 8.58 1.518 1 131.76 ? O7 NAG 502 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 298 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 14 #