data_3K42 # _model_server_result.job_id I4xMr3corgZcCMhZrHyK_Q _model_server_result.datetime_utc '2024-11-29 15:45:43' _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 3k42 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":4001}' # _entry.id 3K42 # _exptl.entry_id 3K42 _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 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 3K42 _cell.length_a 102.582 _cell.length_b 102.582 _cell.length_c 100.145 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3K42 _symmetry.cell_setting ? _symmetry.Int_Tables_number 79 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? dimeric 2 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,J,K,L,M,N,O,P 1 1 A,C,D,E,F,G,H,O 2 1 B,I,J,K,L,M,N,P 2 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' 4_555 y,-x,z 0 1 0 -1 0 0 0 0 1 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 I 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 6 A CYS 6 1_555 A SG CYS 52 A CYS 52 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf2 A SG CYS 106 A CYS 106 1_555 A SG CYS 141 A CYS 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf3 A SG CYS 119 A CYS 119 1_555 A SG CYS 153 A CYS 153 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf4 B SG CYS 6 B CYS 6 1_555 B SG CYS 52 B CYS 52 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf5 B SG CYS 106 B CYS 106 1_555 B SG CYS 141 B CYS 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf6 B SG CYS 119 B CYS 119 1_555 B SG CYS 153 B CYS 153 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? covale ? covale1 B ND2 ASN 81 B ASN 81 1_555 I C1 NAG . B NAG 4001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? # _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 255 n n C1 O1 NAG sing 256 n n C1 O5 NAG sing 257 n n C1 H1 NAG sing 258 n n C2 C3 NAG sing 259 n n C2 N2 NAG sing 260 n n C2 H2 NAG sing 261 n n C3 C4 NAG sing 262 n n C3 O3 NAG sing 263 n n C3 H3 NAG sing 264 n n C4 C5 NAG sing 265 n n C4 O4 NAG sing 266 n n C4 H4 NAG sing 267 n n C5 C6 NAG sing 268 n n C5 O5 NAG sing 269 n n C5 H5 NAG sing 270 n n C6 O6 NAG sing 271 n n C6 H61 NAG sing 272 n n C6 H62 NAG sing 273 n n C7 C8 NAG sing 274 n n C7 N2 NAG sing 275 n n C7 O7 NAG doub 276 n n C8 H81 NAG sing 277 n n C8 H82 NAG sing 278 n n C8 H83 NAG sing 279 n n N2 HN2 NAG sing 280 n n O1 HO1 NAG sing 281 n n O3 HO3 NAG sing 282 n n O4 HO4 NAG sing 283 n n O6 HO6 NAG sing 284 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 3K42 _atom_sites.fract_transf_matrix[1][1] 0.009748 _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] 0.009748 _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] 0.009986 _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 C 2 NAG A 1 3001 3001 NAG NAG . D 3 1GP A 1 7000 7000 1GP 1GP . E 4 SO4 A 1 6000 6000 SO4 SO4 . F 4 SO4 A 1 6002 6002 SO4 SO4 . G 4 SO4 A 1 6003 6003 SO4 SO4 . H 4 SO4 A 1 6007 6007 SO4 SO4 . I 2 NAG B 1 4001 4001 NAG NAG . J 3 1GP B 1 7001 7001 1GP 1GP . K 4 SO4 B 1 6001 6001 SO4 SO4 . L 4 SO4 B 1 6004 6004 SO4 SO4 . M 4 SO4 B 1 6005 6005 SO4 SO4 . N 4 SO4 B 1 6006 6006 SO4 SO4 . O 5 HOH A 1 502 502 HOH WAT . O 5 HOH A 2 504 504 HOH WAT . O 5 HOH A 3 508 508 HOH WAT . O 5 HOH A 4 511 511 HOH WAT . O 5 HOH A 5 515 515 HOH WAT . O 5 HOH A 6 517 517 HOH WAT . O 5 HOH A 7 518 518 HOH WAT . O 5 HOH A 8 526 526 HOH WAT . O 5 HOH A 9 527 527 HOH WAT . O 5 HOH A 10 528 528 HOH WAT . O 5 HOH A 11 531 531 HOH WAT . O 5 HOH A 12 533 533 HOH WAT . O 5 HOH A 13 534 534 HOH WAT . O 5 HOH A 14 535 535 HOH WAT . O 5 HOH A 15 536 536 HOH WAT . O 5 HOH A 16 538 538 HOH WAT . O 5 HOH A 17 539 539 HOH WAT . O 5 HOH A 18 540 540 HOH WAT . O 5 HOH A 19 542 542 HOH WAT . O 5 HOH A 20 543 543 HOH WAT . O 5 HOH A 21 546 546 HOH WAT . O 5 HOH A 22 547 547 HOH WAT . O 5 HOH A 23 551 551 HOH WAT . O 5 HOH A 24 554 554 HOH WAT . O 5 HOH A 25 555 555 HOH WAT . O 5 HOH A 26 558 558 HOH WAT . O 5 HOH A 27 560 560 HOH WAT . O 5 HOH A 28 563 563 HOH WAT . O 5 HOH A 29 565 565 HOH WAT . O 5 HOH A 30 570 570 HOH WAT . O 5 HOH A 31 571 571 HOH WAT . O 5 HOH A 32 572 572 HOH WAT . O 5 HOH A 33 573 573 HOH WAT . O 5 HOH A 34 577 577 HOH WAT . O 5 HOH A 35 580 580 HOH WAT . O 5 HOH A 36 584 584 HOH WAT . O 5 HOH A 37 589 589 HOH WAT . O 5 HOH A 38 592 592 HOH WAT . O 5 HOH A 39 593 593 HOH WAT . O 5 HOH A 40 594 594 HOH WAT . O 5 HOH A 41 596 596 HOH WAT . O 5 HOH A 42 599 599 HOH WAT . O 5 HOH A 43 604 604 HOH WAT . O 5 HOH A 44 606 606 HOH WAT . O 5 HOH A 45 607 607 HOH WAT . O 5 HOH A 46 608 608 HOH WAT . O 5 HOH A 47 611 611 HOH WAT . O 5 HOH A 48 613 613 HOH WAT . O 5 HOH A 49 615 615 HOH WAT . O 5 HOH A 50 616 616 HOH WAT . O 5 HOH A 51 618 618 HOH WAT . O 5 HOH A 52 619 619 HOH WAT . O 5 HOH A 53 622 622 HOH WAT . O 5 HOH A 54 624 624 HOH WAT . O 5 HOH A 55 625 625 HOH WAT . O 5 HOH A 56 626 626 HOH WAT . O 5 HOH A 57 627 627 HOH WAT . O 5 HOH A 58 629 629 HOH WAT . O 5 HOH A 59 630 630 HOH WAT . O 5 HOH A 60 631 631 HOH WAT . O 5 HOH A 61 632 632 HOH WAT . O 5 HOH A 62 633 633 HOH WAT . O 5 HOH A 63 635 635 HOH WAT . O 5 HOH A 64 639 639 HOH WAT . O 5 HOH A 65 643 643 HOH WAT . O 5 HOH A 66 644 644 HOH WAT . O 5 HOH A 67 645 645 HOH WAT . O 5 HOH A 68 647 647 HOH WAT . O 5 HOH A 69 653 653 HOH WAT . O 5 HOH A 70 656 656 HOH WAT . O 5 HOH A 71 658 658 HOH WAT . O 5 HOH A 72 661 661 HOH WAT . O 5 HOH A 73 662 662 HOH WAT . O 5 HOH A 74 663 663 HOH WAT . O 5 HOH A 75 664 664 HOH WAT . O 5 HOH A 76 665 665 HOH WAT . O 5 HOH A 77 666 666 HOH WAT . O 5 HOH A 78 667 667 HOH WAT . O 5 HOH A 79 678 678 HOH WAT . O 5 HOH A 80 681 681 HOH WAT . O 5 HOH A 81 683 683 HOH WAT . O 5 HOH A 82 686 686 HOH WAT . O 5 HOH A 83 687 687 HOH WAT . O 5 HOH A 84 690 690 HOH WAT . O 5 HOH A 85 695 695 HOH WAT . O 5 HOH A 86 696 696 HOH WAT . O 5 HOH A 87 697 697 HOH WAT . O 5 HOH A 88 698 698 HOH WAT . O 5 HOH A 89 701 701 HOH WAT . O 5 HOH A 90 702 702 HOH WAT . O 5 HOH A 91 704 704 HOH WAT . P 5 HOH B 1 501 501 HOH WAT . P 5 HOH B 2 506 506 HOH WAT . P 5 HOH B 3 507 507 HOH WAT . P 5 HOH B 4 510 510 HOH WAT . P 5 HOH B 5 513 513 HOH WAT . P 5 HOH B 6 516 516 HOH WAT . P 5 HOH B 7 519 519 HOH WAT . P 5 HOH B 8 520 520 HOH WAT . P 5 HOH B 9 521 521 HOH WAT . P 5 HOH B 10 523 523 HOH WAT . P 5 HOH B 11 524 524 HOH WAT . P 5 HOH B 12 529 529 HOH WAT . P 5 HOH B 13 530 530 HOH WAT . P 5 HOH B 14 532 532 HOH WAT . P 5 HOH B 15 544 544 HOH WAT . P 5 HOH B 16 545 545 HOH WAT . P 5 HOH B 17 549 549 HOH WAT . P 5 HOH B 18 550 550 HOH WAT . P 5 HOH B 19 552 552 HOH WAT . P 5 HOH B 20 553 553 HOH WAT . P 5 HOH B 21 556 556 HOH WAT . P 5 HOH B 22 559 559 HOH WAT . P 5 HOH B 23 561 561 HOH WAT . P 5 HOH B 24 562 562 HOH WAT . P 5 HOH B 25 566 566 HOH WAT . P 5 HOH B 26 567 567 HOH WAT . P 5 HOH B 27 569 569 HOH WAT . P 5 HOH B 28 575 575 HOH WAT . P 5 HOH B 29 578 578 HOH WAT . P 5 HOH B 30 579 579 HOH WAT . P 5 HOH B 31 582 582 HOH WAT . P 5 HOH B 32 583 583 HOH WAT . P 5 HOH B 33 585 585 HOH WAT . P 5 HOH B 34 586 586 HOH WAT . P 5 HOH B 35 588 588 HOH WAT . P 5 HOH B 36 590 590 HOH WAT . P 5 HOH B 37 591 591 HOH WAT . P 5 HOH B 38 595 595 HOH WAT . P 5 HOH B 39 597 597 HOH WAT . P 5 HOH B 40 598 598 HOH WAT . P 5 HOH B 41 600 600 HOH WAT . P 5 HOH B 42 601 601 HOH WAT . P 5 HOH B 43 602 602 HOH WAT . P 5 HOH B 44 603 603 HOH WAT . P 5 HOH B 45 605 605 HOH WAT . P 5 HOH B 46 609 609 HOH WAT . P 5 HOH B 47 610 610 HOH WAT . P 5 HOH B 48 612 612 HOH WAT . P 5 HOH B 49 614 614 HOH WAT . P 5 HOH B 50 617 617 HOH WAT . P 5 HOH B 51 620 620 HOH WAT . P 5 HOH B 52 621 621 HOH WAT . P 5 HOH B 53 623 623 HOH WAT . P 5 HOH B 54 628 628 HOH WAT . P 5 HOH B 55 634 634 HOH WAT . P 5 HOH B 56 636 636 HOH WAT . P 5 HOH B 57 637 637 HOH WAT . P 5 HOH B 58 638 638 HOH WAT . P 5 HOH B 59 640 640 HOH WAT . P 5 HOH B 60 641 641 HOH WAT . P 5 HOH B 61 642 642 HOH WAT . P 5 HOH B 62 648 648 HOH WAT . P 5 HOH B 63 649 649 HOH WAT . P 5 HOH B 64 650 650 HOH WAT . P 5 HOH B 65 651 651 HOH WAT . P 5 HOH B 66 652 652 HOH WAT . P 5 HOH B 67 654 654 HOH WAT . P 5 HOH B 68 655 655 HOH WAT . P 5 HOH B 69 657 657 HOH WAT . P 5 HOH B 70 659 659 HOH WAT . P 5 HOH B 71 668 668 HOH WAT . P 5 HOH B 72 669 669 HOH WAT . P 5 HOH B 73 670 670 HOH WAT . P 5 HOH B 74 671 671 HOH WAT . P 5 HOH B 75 672 672 HOH WAT . P 5 HOH B 76 673 673 HOH WAT . P 5 HOH B 77 674 674 HOH WAT . P 5 HOH B 78 675 675 HOH WAT . P 5 HOH B 79 676 676 HOH WAT . P 5 HOH B 80 679 679 HOH WAT . P 5 HOH B 81 680 680 HOH WAT . P 5 HOH B 82 684 684 HOH WAT . P 5 HOH B 83 685 685 HOH WAT . P 5 HOH B 84 689 689 HOH WAT . P 5 HOH B 85 692 692 HOH WAT . P 5 HOH B 86 693 693 HOH WAT . P 5 HOH B 87 699 699 HOH WAT . P 5 HOH B 88 700 700 HOH WAT . P 5 HOH B 89 703 703 HOH WAT . # 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 . . . I 2 -18.078 43.007 12.94 1 42.16 ? C1 NAG 4001 B 1 HETATM 2 C C2 NAG . . . I 2 -18.326 44.253 12.086 1 42.9 ? C2 NAG 4001 B 1 HETATM 3 C C3 NAG . . . I 2 -17.625 45.467 12.713 1 44.2 ? C3 NAG 4001 B 1 HETATM 4 C C4 NAG . . . I 2 -18.065 45.631 14.167 1 43.85 ? C4 NAG 4001 B 1 HETATM 5 C C5 NAG . . . I 2 -17.845 44.32 14.927 1 43.35 ? C5 NAG 4001 B 1 HETATM 6 C C6 NAG . . . I 2 -18.363 44.399 16.346 1 43.5 ? C6 NAG 4001 B 1 HETATM 7 C C7 NAG . . . I 2 -18.691 43.622 9.803 1 44.04 ? C7 NAG 4001 B 1 HETATM 8 C C8 NAG . . . I 2 -18.179 42.589 8.813 1 45.16 ? C8 NAG 4001 B 1 HETATM 9 N N2 NAG . . . I 2 -17.846 44.044 10.735 1 43.12 ? N2 NAG 4001 B 1 HETATM 10 O O3 NAG . . . I 2 -17.942 46.645 11.984 1 43.86 ? O3 NAG 4001 B 1 HETATM 11 O O4 NAG . . . I 2 -17.323 46.675 14.78 1 43.67 ? O4 NAG 4001 B 1 HETATM 12 O O5 NAG . . . I 2 -18.552 43.241 14.274 1 42.95 ? O5 NAG 4001 B 1 HETATM 13 O O6 NAG . . . I 2 -19.713 44.834 16.368 1 43.74 ? O6 NAG 4001 B 1 HETATM 14 O O7 NAG . . . I 2 -19.853 44.022 9.728 1 44.77 ? O7 NAG 4001 B 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 29 _model_server_stats.query_time_ms 312 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #