data_4MX7 # _model_server_result.job_id qPOiRVgLktMZNSSP-OeSHg _model_server_result.datetime_utc '2024-10-12 10:23:46' _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 4mx7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":302}' # _entry.id 4MX7 # _exptl.entry_id 4MX7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details 'synthetic dioleoyl phosphatidic acid' _entity.formula_weight 221.208 _entity.id 4 _entity.src_method syn _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 4MX7 _cell.length_a 42.2 _cell.length_b 106.3 _cell.length_c 107.48 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4MX7 _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 _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 D N N ? 4 E N N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 3 _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 3 n C NAG 1 C 1 NAG A 511 NAG 3 n C NAG 2 C 2 NAG A 512 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 104 A CYS 104 1_555 A SG CYS 168 A CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.112 ? disulf ? disulf2 A SG CYS 208 A CYS 208 1_555 A SG CYS 263 A CYS 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? disulf ? disulf3 B SG CYS 25 B CYS 25 1_555 B SG CYS 80 B CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? covale ? covale1 A ND2 ASN 20 A ASN 20 1_555 D C1 NAG . A NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale2 A ND2 ASN 42 A ASN 42 1_555 E C1 NAG . A NAG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale3 A ND2 ASN 165 A ASN 165 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale4 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? # _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 357 n n C1 O1 NAG sing 358 n n C1 O5 NAG sing 359 n n C1 H1 NAG sing 360 n n C2 C3 NAG sing 361 n n C2 N2 NAG sing 362 n n C2 H2 NAG sing 363 n n C3 C4 NAG sing 364 n n C3 O3 NAG sing 365 n n C3 H3 NAG sing 366 n n C4 C5 NAG sing 367 n n C4 O4 NAG sing 368 n n C4 H4 NAG sing 369 n n C5 C6 NAG sing 370 n n C5 O5 NAG sing 371 n n C5 H5 NAG sing 372 n n C6 O6 NAG sing 373 n n C6 H61 NAG sing 374 n n C6 H62 NAG sing 375 n n C7 C8 NAG sing 376 n n C7 N2 NAG sing 377 n n C7 O7 NAG doub 378 n n C8 H81 NAG sing 379 n n C8 H82 NAG sing 380 n n C8 H83 NAG sing 381 n n N2 HN2 NAG sing 382 n n O1 HO1 NAG sing 383 n n O3 HO3 NAG sing 384 n n O4 HO4 NAG sing 385 n n O6 HO6 NAG sing 386 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 4MX7 _atom_sites.fract_transf_matrix[1][1] 0.023697 _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] 0.009407 _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] 0.009304 _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 4 NAG A 1 301 500 NAG NAG . E 4 NAG A 1 302 501 NAG NAG . F 5 MX7 A 1 305 600 MX7 3PH . G 6 HOH A 1 401 1 HOH HOH . G 6 HOH A 2 402 2 HOH HOH . G 6 HOH A 3 403 3 HOH HOH . G 6 HOH A 4 404 4 HOH HOH . G 6 HOH A 5 405 7 HOH HOH . G 6 HOH A 6 406 8 HOH HOH . G 6 HOH A 7 407 9 HOH HOH . G 6 HOH A 8 408 10 HOH HOH . G 6 HOH A 9 409 11 HOH HOH . G 6 HOH A 10 410 12 HOH HOH . G 6 HOH A 11 411 13 HOH HOH . G 6 HOH A 12 412 14 HOH HOH . G 6 HOH A 13 413 16 HOH HOH . G 6 HOH A 14 414 18 HOH HOH . G 6 HOH A 15 415 21 HOH HOH . G 6 HOH A 16 416 23 HOH HOH . G 6 HOH A 17 417 24 HOH HOH . G 6 HOH A 18 418 25 HOH HOH . G 6 HOH A 19 419 29 HOH HOH . G 6 HOH A 20 420 30 HOH HOH . G 6 HOH A 21 421 32 HOH HOH . G 6 HOH A 22 422 34 HOH HOH . G 6 HOH A 23 423 35 HOH HOH . G 6 HOH A 24 424 36 HOH HOH . G 6 HOH A 25 425 38 HOH HOH . G 6 HOH A 26 426 40 HOH HOH . G 6 HOH A 27 427 41 HOH HOH . G 6 HOH A 28 428 43 HOH HOH . G 6 HOH A 29 429 44 HOH HOH . G 6 HOH A 30 430 46 HOH HOH . G 6 HOH A 31 431 48 HOH HOH . G 6 HOH A 32 432 49 HOH HOH . G 6 HOH A 33 433 51 HOH HOH . G 6 HOH A 34 434 52 HOH HOH . G 6 HOH A 35 435 55 HOH HOH . G 6 HOH A 36 436 57 HOH HOH . G 6 HOH A 37 437 58 HOH HOH . G 6 HOH A 38 438 59 HOH HOH . G 6 HOH A 39 439 60 HOH HOH . G 6 HOH A 40 440 61 HOH HOH . G 6 HOH A 41 441 62 HOH HOH . G 6 HOH A 42 442 63 HOH HOH . G 6 HOH A 43 443 67 HOH HOH . G 6 HOH A 44 444 68 HOH HOH . G 6 HOH A 45 445 69 HOH HOH . G 6 HOH A 46 446 70 HOH HOH . G 6 HOH A 47 447 71 HOH HOH . G 6 HOH A 48 448 73 HOH HOH . G 6 HOH A 49 449 76 HOH HOH . G 6 HOH A 50 450 77 HOH HOH . G 6 HOH A 51 451 80 HOH HOH . G 6 HOH A 52 452 81 HOH HOH . G 6 HOH A 53 453 82 HOH HOH . G 6 HOH A 54 454 87 HOH HOH . G 6 HOH A 55 455 88 HOH HOH . G 6 HOH A 56 456 89 HOH HOH . G 6 HOH A 57 457 90 HOH HOH . G 6 HOH A 58 458 91 HOH HOH . G 6 HOH A 59 459 92 HOH HOH . G 6 HOH A 60 460 94 HOH HOH . G 6 HOH A 61 461 95 HOH HOH . G 6 HOH A 62 462 96 HOH HOH . G 6 HOH A 63 463 98 HOH HOH . G 6 HOH A 64 464 101 HOH HOH . G 6 HOH A 65 465 103 HOH HOH . G 6 HOH A 66 466 105 HOH HOH . G 6 HOH A 67 467 106 HOH HOH . G 6 HOH A 68 468 107 HOH HOH . G 6 HOH A 69 469 109 HOH HOH . G 6 HOH A 70 470 110 HOH HOH . G 6 HOH A 71 471 112 HOH HOH . G 6 HOH A 72 472 113 HOH HOH . G 6 HOH A 73 473 114 HOH HOH . G 6 HOH A 74 474 116 HOH HOH . G 6 HOH A 75 475 118 HOH HOH . G 6 HOH A 76 476 119 HOH HOH . G 6 HOH A 77 477 121 HOH HOH . G 6 HOH A 78 478 122 HOH HOH . G 6 HOH A 79 479 124 HOH HOH . G 6 HOH A 80 480 127 HOH HOH . G 6 HOH A 81 481 128 HOH HOH . G 6 HOH A 82 482 129 HOH HOH . G 6 HOH A 83 483 131 HOH HOH . G 6 HOH A 84 484 132 HOH HOH . G 6 HOH A 85 485 133 HOH HOH . G 6 HOH A 86 486 134 HOH HOH . G 6 HOH A 87 487 135 HOH HOH . H 6 HOH B 1 101 6 HOH HOH . H 6 HOH B 2 102 15 HOH HOH . H 6 HOH B 3 103 17 HOH HOH . H 6 HOH B 4 104 19 HOH HOH . H 6 HOH B 5 105 20 HOH HOH . H 6 HOH B 6 106 22 HOH HOH . H 6 HOH B 7 107 26 HOH HOH . H 6 HOH B 8 108 27 HOH HOH . H 6 HOH B 9 109 28 HOH HOH . H 6 HOH B 10 110 31 HOH HOH . H 6 HOH B 11 111 33 HOH HOH . H 6 HOH B 12 112 37 HOH HOH . H 6 HOH B 13 113 39 HOH HOH . H 6 HOH B 14 114 47 HOH HOH . H 6 HOH B 15 115 50 HOH HOH . H 6 HOH B 16 116 54 HOH HOH . H 6 HOH B 17 117 64 HOH HOH . H 6 HOH B 18 118 66 HOH HOH . H 6 HOH B 19 119 72 HOH HOH . H 6 HOH B 20 120 74 HOH HOH . H 6 HOH B 21 121 78 HOH HOH . H 6 HOH B 22 122 84 HOH HOH . H 6 HOH B 23 123 85 HOH HOH . H 6 HOH B 24 124 86 HOH HOH . H 6 HOH B 25 125 93 HOH HOH . H 6 HOH B 26 126 102 HOH HOH . H 6 HOH B 27 127 111 HOH HOH . H 6 HOH B 28 128 117 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 . . . E 4 -9.405 -17.96 -19.329 1 33.56 ? C1 NAG 302 A 1 HETATM 2 C C2 NAG . . . E 4 -9.579 -19.12 -18.341 1 36.59 ? C2 NAG 302 A 1 HETATM 3 C C3 NAG . . . E 4 -8.877 -20.401 -18.788 1 38.43 ? C3 NAG 302 A 1 HETATM 4 C C4 NAG . . . E 4 -9.234 -20.723 -20.239 1 38.79 ? C4 NAG 302 A 1 HETATM 5 C C5 NAG . . . E 4 -8.843 -19.514 -21.084 1 36.73 ? C5 NAG 302 A 1 HETATM 6 C C6 NAG . . . E 4 -8.986 -19.777 -22.589 1 37.23 ? C6 NAG 302 A 1 HETATM 7 C C7 NAG . . . E 4 -9.876 -18.91 -15.951 1 37.74 ? C7 NAG 302 A 1 HETATM 8 C C8 NAG . . . E 4 -9.304 -18.558 -14.614 1 37.55 ? C8 NAG 302 A 1 HETATM 9 N N2 NAG . . . E 4 -9.094 -18.785 -17.016 1 36.56 ? N2 NAG 302 A 1 HETATM 10 O O3 NAG . . . E 4 -9.313 -21.409 -17.913 1 40.95 ? O3 NAG 302 A 1 HETATM 11 O O4 NAG . . . E 4 -8.628 -21.901 -20.737 1 40.88 ? O4 NAG 302 A 1 HETATM 12 O O5 NAG . . . E 4 -9.623 -18.4 -20.663 1 34.16 ? O5 NAG 302 A 1 HETATM 13 O O6 NAG . . . E 4 -10.346 -19.994 -22.926 1 37.42 ? O6 NAG 302 A 1 HETATM 14 O O7 NAG . . . E 4 -11.033 -19.295 -16.014 1 39.05 ? O7 NAG 302 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #