data_2B4X # _model_server_result.job_id E_19MNbaXUEyKzNgv729oQ _model_server_result.datetime_utc '2024-11-15 13:02:35' _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 2b4x # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":841}' # _entry.id 2B4X # _exptl.entry_id 2B4X _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 6 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 105 _cell.angle_gamma 90 _cell.entry_id 2B4X _cell.length_a 68.47 _cell.length_b 98.67 _cell.length_c 89.24 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2B4X _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 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,I,J,K,L _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 E N N ? 4 F N N ? 4 G N N ? 4 H N N ? 4 I N N ? 4 J 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 A 1 NAG I 841 NAG 3 n C NAG 2 A 2 NAG I 842 NAG 3 n D NAG 1 B 1 NAG L 861 NAG 3 n D NAG 2 B 2 NAG L 862 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 4 I CYS 8 1_555 A SG CYS 124 I CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf2 A SG CYS 17 I CYS 21 1_555 A SG CYS 91 I CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf3 A SG CYS 243 I CYS 247 1_555 A SG CYS 426 I CYS 430 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf4 B SG CYS 4 L CYS 8 1_555 B SG CYS 124 L CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf5 B SG CYS 17 L CYS 21 1_555 B SG CYS 91 L CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf6 B SG CYS 243 L CYS 247 1_555 B SG CYS 426 L CYS 430 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? covale ? covale1 A ND2 ASN 92 I ASN 96 1_555 E C1 NAG . I NAG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale2 A ND2 ASN 151 I ASN 155 1_555 C C1 NAG . A NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.467 ? covale ? covale3 B ND2 ASN 151 L ASN 155 1_555 I C1 NAG . L NAG 841 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale4 B ND2 ASN 188 L ASN 192 1_555 D C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale5 C O4 NAG . A NAG 1 1_555 C C1 NAG . A NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.389 ? covale ? covale6 D O4 NAG . B NAG 1 1_555 D C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.389 ? # _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 2B4X _atom_sites.fract_transf_matrix[1][1] 0.0146 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00391 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01013 _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] 0.0116 _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 E 4 NAG I 1 801 801 NAG NAG . F 4 NAG I 1 861 861 NAG NAG . G 4 NAG I 1 862 862 NAG NAG . H 4 NAG L 1 801 801 NAG NAG . I 4 NAG L 1 841 841 NAG NAG . J 4 NAG L 1 842 842 NAG NAG . K 5 HOH I 1 500 500 HOH HOH . K 5 HOH I 2 501 501 HOH HOH . K 5 HOH I 3 502 502 HOH HOH . K 5 HOH I 4 503 503 HOH HOH . K 5 HOH I 5 507 507 HOH HOH . K 5 HOH I 6 509 509 HOH HOH . K 5 HOH I 7 510 510 HOH HOH . K 5 HOH I 8 511 511 HOH HOH . K 5 HOH I 9 514 514 HOH HOH . K 5 HOH I 10 515 515 HOH HOH . K 5 HOH I 11 516 516 HOH HOH . K 5 HOH I 12 519 519 HOH HOH . K 5 HOH I 13 524 524 HOH HOH . K 5 HOH I 14 527 527 HOH HOH . K 5 HOH I 15 529 529 HOH HOH . K 5 HOH I 16 530 530 HOH HOH . K 5 HOH I 17 532 532 HOH HOH . K 5 HOH I 18 533 533 HOH HOH . K 5 HOH I 19 535 535 HOH HOH . K 5 HOH I 20 536 536 HOH HOH . K 5 HOH I 21 540 540 HOH HOH . K 5 HOH I 22 544 544 HOH HOH . K 5 HOH I 23 545 545 HOH HOH . K 5 HOH I 24 546 546 HOH HOH . K 5 HOH I 25 547 547 HOH HOH . K 5 HOH I 26 550 550 HOH HOH . K 5 HOH I 27 556 556 HOH HOH . K 5 HOH I 28 557 557 HOH HOH . K 5 HOH I 29 562 562 HOH HOH . K 5 HOH I 30 563 563 HOH HOH . K 5 HOH I 31 564 564 HOH HOH . K 5 HOH I 32 566 566 HOH HOH . K 5 HOH I 33 568 568 HOH HOH . K 5 HOH I 34 571 571 HOH HOH . K 5 HOH I 35 572 572 HOH HOH . K 5 HOH I 36 573 573 HOH HOH . K 5 HOH I 37 576 576 HOH HOH . K 5 HOH I 38 578 578 HOH HOH . K 5 HOH I 39 579 579 HOH HOH . K 5 HOH I 40 581 581 HOH HOH . K 5 HOH I 41 582 582 HOH HOH . K 5 HOH I 42 584 584 HOH HOH . K 5 HOH I 43 586 586 HOH HOH . K 5 HOH I 44 587 587 HOH HOH . K 5 HOH I 45 588 588 HOH HOH . K 5 HOH I 46 594 594 HOH HOH . K 5 HOH I 47 595 595 HOH HOH . K 5 HOH I 48 596 596 HOH HOH . K 5 HOH I 49 597 597 HOH HOH . K 5 HOH I 50 601 601 HOH HOH . K 5 HOH I 51 602 602 HOH HOH . K 5 HOH I 52 603 603 HOH HOH . K 5 HOH I 53 604 604 HOH HOH . K 5 HOH I 54 605 605 HOH HOH . K 5 HOH I 55 608 608 HOH HOH . K 5 HOH I 56 609 609 HOH HOH . K 5 HOH I 57 614 614 HOH HOH . K 5 HOH I 58 617 617 HOH HOH . K 5 HOH I 59 618 618 HOH HOH . K 5 HOH I 60 622 622 HOH HOH . K 5 HOH I 61 624 624 HOH HOH . K 5 HOH I 62 625 625 HOH HOH . K 5 HOH I 63 626 626 HOH HOH . K 5 HOH I 64 627 627 HOH HOH . K 5 HOH I 65 628 628 HOH HOH . K 5 HOH I 66 629 629 HOH HOH . K 5 HOH I 67 630 630 HOH HOH . K 5 HOH I 68 632 632 HOH HOH . K 5 HOH I 69 635 635 HOH HOH . K 5 HOH I 70 636 636 HOH HOH . K 5 HOH I 71 637 637 HOH HOH . K 5 HOH I 72 638 638 HOH HOH . K 5 HOH I 73 639 639 HOH HOH . K 5 HOH I 74 640 640 HOH HOH . K 5 HOH I 75 641 641 HOH HOH . K 5 HOH I 76 642 642 HOH HOH . K 5 HOH I 77 643 643 HOH HOH . K 5 HOH I 78 654 654 HOH HOH . K 5 HOH I 79 655 655 HOH HOH . K 5 HOH I 80 657 657 HOH HOH . K 5 HOH I 81 658 658 HOH HOH . K 5 HOH I 82 659 659 HOH HOH . K 5 HOH I 83 660 660 HOH HOH . K 5 HOH I 84 665 665 HOH HOH . L 5 HOH L 1 504 504 HOH HOH . L 5 HOH L 2 508 508 HOH HOH . L 5 HOH L 3 512 512 HOH HOH . L 5 HOH L 4 513 513 HOH HOH . L 5 HOH L 5 517 517 HOH HOH . L 5 HOH L 6 518 518 HOH HOH . L 5 HOH L 7 520 520 HOH HOH . L 5 HOH L 8 521 521 HOH HOH . L 5 HOH L 9 522 522 HOH HOH . L 5 HOH L 10 523 523 HOH HOH . L 5 HOH L 11 526 526 HOH HOH . L 5 HOH L 12 528 528 HOH HOH . L 5 HOH L 13 531 531 HOH HOH . L 5 HOH L 14 537 537 HOH HOH . L 5 HOH L 15 538 538 HOH HOH . L 5 HOH L 16 541 541 HOH HOH . L 5 HOH L 17 542 542 HOH HOH . L 5 HOH L 18 548 548 HOH HOH . L 5 HOH L 19 549 549 HOH HOH . L 5 HOH L 20 551 551 HOH HOH . L 5 HOH L 21 552 552 HOH HOH . L 5 HOH L 22 553 553 HOH HOH . L 5 HOH L 23 558 558 HOH HOH . L 5 HOH L 24 559 559 HOH HOH . L 5 HOH L 25 560 560 HOH HOH . L 5 HOH L 26 561 561 HOH HOH . L 5 HOH L 27 565 565 HOH HOH . L 5 HOH L 28 567 567 HOH HOH . L 5 HOH L 29 569 569 HOH HOH . L 5 HOH L 30 570 570 HOH HOH . L 5 HOH L 31 575 575 HOH HOH . L 5 HOH L 32 577 577 HOH HOH . L 5 HOH L 33 580 580 HOH HOH . L 5 HOH L 34 585 585 HOH HOH . L 5 HOH L 35 590 590 HOH HOH . L 5 HOH L 36 591 591 HOH HOH . L 5 HOH L 37 592 592 HOH HOH . L 5 HOH L 38 593 593 HOH HOH . L 5 HOH L 39 598 598 HOH HOH . L 5 HOH L 40 599 599 HOH HOH . L 5 HOH L 41 600 600 HOH HOH . L 5 HOH L 42 606 606 HOH HOH . L 5 HOH L 43 610 610 HOH HOH . L 5 HOH L 44 611 611 HOH HOH . L 5 HOH L 45 612 612 HOH HOH . L 5 HOH L 46 648 648 HOH HOH . L 5 HOH L 47 649 649 HOH HOH . L 5 HOH L 48 650 650 HOH HOH . L 5 HOH L 49 651 651 HOH HOH . L 5 HOH L 50 652 652 HOH HOH . L 5 HOH L 51 653 653 HOH HOH . L 5 HOH L 52 656 656 HOH HOH . L 5 HOH L 53 661 661 HOH HOH . L 5 HOH L 54 662 662 HOH HOH . L 5 HOH L 55 663 663 HOH HOH . L 5 HOH L 56 664 664 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 . . . I 4 -36.085 -8.969 -55.45 1 89.24 ? C1 NAG 841 L 1 HETATM 2 C C2 NAG . . . I 4 -37.512 -9.188 -55.921 1 90.32 ? C2 NAG 841 L 1 HETATM 3 C C3 NAG . . . I 4 -38.382 -8.034 -55.396 1 93.04 ? C3 NAG 841 L 1 HETATM 4 C C4 NAG . . . I 4 -38.089 -7.623 -53.918 1 94.31 ? C4 NAG 841 L 1 HETATM 5 C C5 NAG . . . I 4 -36.614 -7.749 -53.513 1 94.21 ? C5 NAG 841 L 1 HETATM 6 C C6 NAG . . . I 4 -36.405 -7.797 -52.009 1 96.27 ? C6 NAG 841 L 1 HETATM 7 C C7 NAG . . . I 4 -36.902 -10.115 -58.079 1 87.72 ? C7 NAG 841 L 1 HETATM 8 C C8 NAG . . . I 4 -35.709 -9.619 -58.887 1 86.47 ? C8 NAG 841 L 1 HETATM 9 N N2 NAG . . . I 4 -37.575 -9.209 -57.373 1 88.96 ? N2 NAG 841 L 1 HETATM 10 O O3 NAG . . . I 4 -39.749 -8.407 -55.515 1 93.85 ? O3 NAG 841 L 1 HETATM 11 O O4 NAG . . . I 4 -38.464 -6.266 -53.728 1 94.96 ? O4 NAG 841 L 1 HETATM 12 O O5 NAG . . . I 4 -36.052 -8.953 -54.036 1 93 ? O5 NAG 841 L 1 HETATM 13 O O6 NAG . . . I 4 -35.245 -8.556 -51.671 1 97.84 ? O6 NAG 841 L 1 HETATM 14 O O7 NAG . . . I 4 -37.209 -11.308 -58.102 1 86.43 ? O7 NAG 841 L 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 276 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #