data_1XCD # _model_server_result.job_id vhrD-QrdxW1QhvGmIQ1Q2A _model_server_result.datetime_utc '2024-12-28 01:05:46' _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 1xcd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":400}' # _entry.id 1XCD # _exptl.entry_id 1XCD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 2 _entity.src_method man _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 90 _cell.entry_id 1XCD _cell.length_a 55.38 _cell.length_b 124.11 _cell.length_c 129.52 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1XCD _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 ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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' 3_555 -x,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 0 0 64.76 # 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 25 A CYS 25 1_555 A SG CYS 31 A CYS 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf2 A SG CYS 29 A CYS 29 1_555 A SG CYS 38 A CYS 38 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf3 A SG CYS 284 A CYS 284 1_555 A SG CYS 317 A CYS 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? covale ? covale1 A ND2 ASN 182 A ASN 182 1_555 B C1 NAG . A NAG 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale2 A ND2 ASN 233 A ASN 233 1_555 C C1 NAG . A NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale3 A ND2 ASN 274 A ASN 274 1_555 D C1 NAG . A NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? # _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 1XCD _atom_sites.fract_transf_matrix[1][1] 0.018057 _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] 0.008057 _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] 0.007721 _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 1 400 400 NAG NAG . C 2 NAG A 1 401 401 NAG NAG . D 2 NAG A 1 402 402 NAG NAG . E 3 TRS A 1 700 700 TRS TMN . F 3 TRS A 1 701 701 TRS TMN . G 4 HOH A 1 500 500 HOH HOH . G 4 HOH A 2 501 501 HOH HOH . G 4 HOH A 3 502 502 HOH HOH . G 4 HOH A 4 503 503 HOH HOH . G 4 HOH A 5 504 504 HOH HOH . G 4 HOH A 6 505 505 HOH HOH . G 4 HOH A 7 506 506 HOH HOH . G 4 HOH A 8 507 507 HOH HOH . G 4 HOH A 9 508 508 HOH HOH . G 4 HOH A 10 509 509 HOH HOH . G 4 HOH A 11 510 510 HOH HOH . G 4 HOH A 12 511 511 HOH HOH . G 4 HOH A 13 512 512 HOH HOH . G 4 HOH A 14 513 513 HOH HOH . G 4 HOH A 15 514 514 HOH HOH . G 4 HOH A 16 515 515 HOH HOH . G 4 HOH A 17 516 516 HOH HOH . G 4 HOH A 18 517 517 HOH HOH . G 4 HOH A 19 518 518 HOH HOH . G 4 HOH A 20 519 519 HOH HOH . G 4 HOH A 21 520 520 HOH HOH . G 4 HOH A 22 521 521 HOH HOH . G 4 HOH A 23 522 522 HOH HOH . G 4 HOH A 24 523 523 HOH HOH . G 4 HOH A 25 524 524 HOH HOH . G 4 HOH A 26 525 525 HOH HOH . G 4 HOH A 27 526 526 HOH HOH . G 4 HOH A 28 527 527 HOH HOH . G 4 HOH A 29 528 528 HOH HOH . G 4 HOH A 30 529 529 HOH HOH . G 4 HOH A 31 530 530 HOH HOH . G 4 HOH A 32 531 531 HOH HOH . G 4 HOH A 33 532 532 HOH HOH . G 4 HOH A 34 533 533 HOH HOH . G 4 HOH A 35 535 535 HOH HOH . G 4 HOH A 36 536 536 HOH HOH . G 4 HOH A 37 537 537 HOH HOH . G 4 HOH A 38 538 538 HOH HOH . G 4 HOH A 39 539 539 HOH HOH . G 4 HOH A 40 540 540 HOH HOH . G 4 HOH A 41 541 541 HOH HOH . G 4 HOH A 42 542 542 HOH HOH . G 4 HOH A 43 543 543 HOH HOH . G 4 HOH A 44 544 544 HOH HOH . G 4 HOH A 45 545 545 HOH HOH . G 4 HOH A 46 546 546 HOH HOH . G 4 HOH A 47 547 547 HOH HOH . G 4 HOH A 48 548 548 HOH HOH . G 4 HOH A 49 549 549 HOH HOH . G 4 HOH A 50 550 550 HOH HOH . G 4 HOH A 51 551 551 HOH HOH . G 4 HOH A 52 552 552 HOH HOH . G 4 HOH A 53 553 553 HOH HOH . G 4 HOH A 54 554 554 HOH HOH . G 4 HOH A 55 555 555 HOH HOH . G 4 HOH A 56 556 556 HOH HOH . G 4 HOH A 57 557 557 HOH HOH . G 4 HOH A 58 558 558 HOH HOH . G 4 HOH A 59 559 559 HOH HOH . G 4 HOH A 60 560 560 HOH HOH . G 4 HOH A 61 561 561 HOH HOH . G 4 HOH A 62 562 562 HOH HOH . G 4 HOH A 63 563 563 HOH HOH . G 4 HOH A 64 564 564 HOH HOH . G 4 HOH A 65 565 565 HOH HOH . G 4 HOH A 66 566 566 HOH HOH . G 4 HOH A 67 567 567 HOH HOH . G 4 HOH A 68 568 568 HOH HOH . G 4 HOH A 69 570 570 HOH HOH . G 4 HOH A 70 571 571 HOH HOH . G 4 HOH A 71 572 572 HOH HOH . G 4 HOH A 72 573 573 HOH HOH . G 4 HOH A 73 574 574 HOH HOH . G 4 HOH A 74 575 575 HOH HOH . G 4 HOH A 75 576 576 HOH HOH . G 4 HOH A 76 577 577 HOH HOH . G 4 HOH A 77 578 578 HOH HOH . G 4 HOH A 78 579 579 HOH HOH . G 4 HOH A 79 580 580 HOH HOH . G 4 HOH A 80 581 581 HOH HOH . G 4 HOH A 81 582 582 HOH HOH . G 4 HOH A 82 583 583 HOH HOH . G 4 HOH A 83 584 584 HOH HOH . G 4 HOH A 84 585 585 HOH HOH . G 4 HOH A 85 586 586 HOH HOH . G 4 HOH A 86 587 587 HOH HOH . G 4 HOH A 87 588 588 HOH HOH . G 4 HOH A 88 589 589 HOH HOH . G 4 HOH A 89 590 590 HOH HOH . G 4 HOH A 90 591 591 HOH HOH . G 4 HOH A 91 592 592 HOH HOH . G 4 HOH A 92 593 593 HOH HOH . G 4 HOH A 93 594 594 HOH HOH . G 4 HOH A 94 595 595 HOH HOH . G 4 HOH A 95 596 596 HOH HOH . G 4 HOH A 96 597 597 HOH HOH . G 4 HOH A 97 598 598 HOH HOH . G 4 HOH A 98 599 599 HOH HOH . G 4 HOH A 99 600 600 HOH HOH . G 4 HOH A 100 601 601 HOH HOH . G 4 HOH A 101 602 602 HOH HOH . G 4 HOH A 102 603 603 HOH HOH . G 4 HOH A 103 604 604 HOH HOH . G 4 HOH A 104 605 605 HOH HOH . G 4 HOH A 105 606 606 HOH HOH . G 4 HOH A 106 607 607 HOH HOH . G 4 HOH A 107 608 608 HOH HOH . G 4 HOH A 108 609 609 HOH HOH . G 4 HOH A 109 610 610 HOH HOH . G 4 HOH A 110 611 611 HOH HOH . G 4 HOH A 111 612 612 HOH HOH . G 4 HOH A 112 614 614 HOH HOH . G 4 HOH A 113 615 615 HOH HOH . G 4 HOH A 114 617 617 HOH HOH . G 4 HOH A 115 618 618 HOH HOH . G 4 HOH A 116 619 619 HOH HOH . G 4 HOH A 117 620 620 HOH HOH . G 4 HOH A 118 621 621 HOH HOH . G 4 HOH A 119 622 622 HOH HOH . G 4 HOH A 120 624 624 HOH HOH . G 4 HOH A 121 626 626 HOH HOH . G 4 HOH A 122 627 627 HOH HOH . G 4 HOH A 123 628 628 HOH HOH . G 4 HOH A 124 630 630 HOH HOH . G 4 HOH A 125 631 631 HOH HOH . G 4 HOH A 126 632 632 HOH HOH . G 4 HOH A 127 633 633 HOH HOH . G 4 HOH A 128 634 634 HOH HOH . G 4 HOH A 129 635 635 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 . . . B 2 -11.038 31.316 47.444 1 58.18 ? C1 NAG 400 A 1 HETATM 2 C C2 NAG . . . B 2 -9.957 31.309 46.372 1 59.82 ? C2 NAG 400 A 1 HETATM 3 C C3 NAG . . . B 2 -9.734 32.716 45.81 1 62.03 ? C3 NAG 400 A 1 HETATM 4 C C4 NAG . . . B 2 -11.067 33.337 45.364 1 64.29 ? C4 NAG 400 A 1 HETATM 5 C C5 NAG . . . B 2 -12.11 33.226 46.489 1 63.63 ? C5 NAG 400 A 1 HETATM 6 C C6 NAG . . . B 2 -13.48 33.702 46.054 1 64.21 ? C6 NAG 400 A 1 HETATM 7 C C7 NAG . . . B 2 -8.127 29.76 46.357 1 59.2 ? C7 NAG 400 A 1 HETATM 8 C C8 NAG . . . B 2 -6.639 29.584 46.617 1 60.74 ? C8 NAG 400 A 1 HETATM 9 N N2 NAG . . . B 2 -8.725 30.796 46.933 1 59.36 ? N2 NAG 400 A 1 HETATM 10 O O3 NAG . . . B 2 -8.846 32.641 44.702 1 61.91 ? O3 NAG 400 A 1 HETATM 11 O O4 NAG . . . B 2 -10.871 34.708 45.021 1 65.98 ? O4 NAG 400 A 1 HETATM 12 O O5 NAG . . . B 2 -12.253 31.849 46.907 1 61.33 ? O5 NAG 400 A 1 HETATM 13 O O6 NAG . . . B 2 -14.48 33.307 46.982 1 64.78 ? O6 NAG 400 A 1 HETATM 14 O O7 NAG . . . B 2 -8.724 28.966 45.632 1 56.84 ? O7 NAG 400 A 1 # _model_server_stats.io_time_ms 93 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 306 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #