data_6ONE
#
_model_server_result.job_id            VALGeexOSJk9BKgtmbQAiA 
_model_server_result.datetime_utc      '2024-10-17 22:13:45' 
_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          6one 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":503}' 
#
_entry.id    6ONE 
#
_exptl.entry_id    6ONE 
_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    11 
_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            6ONE 
_cell.length_a            66.29 
_cell.length_b            66.95 
_cell.length_c            86.88 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6ONE 
_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    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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,M,N,O 
_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
? 2 B N N 
? 2 C N N 
? 2 D N N 
? 2 E N N 
? 2 F N N 
? 2 G N N 
? 2 H N N 
? 2 I N N 
? 2 J N N 
? 2 K N N 
? 2 L 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 13 A CYS 54 1_555 A SG CYS 33 A CYS 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf2 A SG CYS 78 A CYS 119 1_555 A SG CYS 91 A CYS 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? 
disulf ? disulf3 A SG CYS 104 A CYS 218 1_555 A SG CYS 133 A CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
disulf ? disulf4 A SG CYS 114 A CYS 228 1_555 A SG CYS 125 A CYS 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf5 A SG CYS 182 A CYS 296 1_555 A SG CYS 201 A CYS 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? 
disulf ? disulf6 A SG CYS 247 A CYS 378 1_555 A SG CYS 308 A CYS 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? 
disulf ? disulf7 A SG CYS 254 A CYS 385 1_555 A SG CYS 281 A CYS 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf8 A SG CYS 264 A CYS 395 1_555 A SG CYS 273 A CYS 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? 
covale ? covale1 A ND2 ASN 120 A ASN 234 1_555 B C1 NAG . A NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? 
covale ? covale2 A ND2 ASN 127 A ASN 241 1_555 C C1 NAG . A NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.463 ? 
covale ? covale3 A ND2 ASN 148 A ASN 262 1_555 D C1 NAG . A NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? 
covale ? covale4 A ND2 ASN 162 A ASN 276 1_555 E C1 NAG . A NAG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? 
covale ? covale5 A ND2 ASN 175 A ASN 289 1_555 F C1 NAG . A NAG 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? 
covale ? covale6 A ND2 ASN 181 A ASN 295 1_555 G C1 NAG . A NAG 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? 
covale ? covale7 A ND2 ASN 204 A ASN 334 1_555 H C1 NAG . A NAG 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? 
covale ? covale8 A ND2 ASN 225 A ASN 355 1_555 J C1 NAG . A NAG 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? 
covale ? covale9 A ND2 ASN 255 A ASN 386 1_555 I C1 NAG . A NAG 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? 
covale ? covale10 A ND2 ASN 261 A ASN 392 1_555 L C1 NAG . A NAG 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? 
covale ? covale11 A ND2 ASN 311 A ASN 448 1_555 K C1 NAG . A NAG 510 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? 
#
_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 308 n n 
C1 O1 NAG sing 309 n n 
C1 O5 NAG sing 310 n n 
C1 H1 NAG sing 311 n n 
C2 C3 NAG sing 312 n n 
C2 N2 NAG sing 313 n n 
C2 H2 NAG sing 314 n n 
C3 C4 NAG sing 315 n n 
C3 O3 NAG sing 316 n n 
C3 H3 NAG sing 317 n n 
C4 C5 NAG sing 318 n n 
C4 O4 NAG sing 319 n n 
C4 H4 NAG sing 320 n n 
C5 C6 NAG sing 321 n n 
C5 O5 NAG sing 322 n n 
C5 H5 NAG sing 323 n n 
C6 O6 NAG sing 324 n n 
C6 H61 NAG sing 325 n n 
C6 H62 NAG sing 326 n n 
C7 C8 NAG sing 327 n n 
C7 N2 NAG sing 328 n n 
C7 O7 NAG doub 329 n n 
C8 H81 NAG sing 330 n n 
C8 H82 NAG sing 331 n n 
C8 H83 NAG sing 332 n n 
N2 HN2 NAG sing 333 n n 
O1 HO1 NAG sing 334 n n 
O3 HO3 NAG sing 335 n n 
O4 HO4 NAG sing 336 n n 
O6 HO6 NAG sing 337 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                     6ONE 
_atom_sites.fract_transf_matrix[1][1]    0.015085 
_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]    0.014937 
_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]    0.01151 
_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 1 501 502 NAG NAG . 
C 2 NAG A 1 502 503 NAG NAG . 
D 2 NAG A 1 503 504 NAG NAG . 
E 2 NAG A 1 504 505 NAG NAG . 
F 2 NAG A 1 505 506 NAG NAG . 
G 2 NAG A 1 506 507 NAG NAG . 
H 2 NAG A 1 507 508 NAG NAG . 
I 2 NAG A 1 508 509 NAG NAG . 
J 2 NAG A 1 509 510 NAG NAG . 
K 2 NAG A 1 510 511 NAG NAG . 
L 2 NAG A 1 511 512 NAG NAG . 
M 3 MVY A 1 512 513 MVY MVY . 
N 4 EPE A 1 513 514 EPE EPE . 
O 5 HOH A 1 601 660 HOH HOH . 
O 5 HOH A 2 602 637 HOH HOH . 
O 5 HOH A 3 603 691 HOH HOH . 
O 5 HOH A 4 604 667 HOH HOH . 
O 5 HOH A 5 605 626 HOH HOH . 
O 5 HOH A 6 606 671 HOH HOH . 
O 5 HOH A 7 607 707 HOH HOH . 
O 5 HOH A 8 608 693 HOH HOH . 
O 5 HOH A 9 609 624 HOH HOH . 
O 5 HOH A 10 610 694 HOH HOH . 
O 5 HOH A 11 611 628 HOH HOH . 
O 5 HOH A 12 612 701 HOH HOH . 
O 5 HOH A 13 613 704 HOH HOH . 
O 5 HOH A 14 614 674 HOH HOH . 
O 5 HOH A 15 615 669 HOH HOH . 
O 5 HOH A 16 616 653 HOH HOH . 
O 5 HOH A 17 617 659 HOH HOH . 
O 5 HOH A 18 618 631 HOH HOH . 
O 5 HOH A 19 619 642 HOH HOH . 
O 5 HOH A 20 620 656 HOH HOH . 
O 5 HOH A 21 621 601 HOH HOH . 
O 5 HOH A 22 622 652 HOH HOH . 
O 5 HOH A 23 623 604 HOH HOH . 
O 5 HOH A 24 624 608 HOH HOH . 
O 5 HOH A 25 625 607 HOH HOH . 
O 5 HOH A 26 626 665 HOH HOH . 
O 5 HOH A 27 627 619 HOH HOH . 
O 5 HOH A 28 628 705 HOH HOH . 
O 5 HOH A 29 629 636 HOH HOH . 
O 5 HOH A 30 630 612 HOH HOH . 
O 5 HOH A 31 631 682 HOH HOH . 
O 5 HOH A 32 632 602 HOH HOH . 
O 5 HOH A 33 633 603 HOH HOH . 
O 5 HOH A 34 634 609 HOH HOH . 
O 5 HOH A 35 635 697 HOH HOH . 
O 5 HOH A 36 636 670 HOH HOH . 
O 5 HOH A 37 637 645 HOH HOH . 
O 5 HOH A 38 638 689 HOH HOH . 
O 5 HOH A 39 639 687 HOH HOH . 
O 5 HOH A 40 640 654 HOH HOH . 
O 5 HOH A 41 641 606 HOH HOH . 
O 5 HOH A 42 642 684 HOH HOH . 
O 5 HOH A 43 643 629 HOH HOH . 
O 5 HOH A 44 644 675 HOH HOH . 
O 5 HOH A 45 645 663 HOH HOH . 
O 5 HOH A 46 646 644 HOH HOH . 
O 5 HOH A 47 647 640 HOH HOH . 
O 5 HOH A 48 648 685 HOH HOH . 
O 5 HOH A 49 649 641 HOH HOH . 
O 5 HOH A 50 650 643 HOH HOH . 
O 5 HOH A 51 651 661 HOH HOH . 
O 5 HOH A 52 652 634 HOH HOH . 
O 5 HOH A 53 653 647 HOH HOH . 
O 5 HOH A 54 654 625 HOH HOH . 
O 5 HOH A 55 655 650 HOH HOH . 
O 5 HOH A 56 656 649 HOH HOH . 
O 5 HOH A 57 657 664 HOH HOH . 
O 5 HOH A 58 658 696 HOH HOH . 
O 5 HOH A 59 659 700 HOH HOH . 
O 5 HOH A 60 660 639 HOH HOH . 
O 5 HOH A 61 661 610 HOH HOH . 
O 5 HOH A 62 662 638 HOH HOH . 
O 5 HOH A 63 663 630 HOH HOH . 
O 5 HOH A 64 664 615 HOH HOH . 
O 5 HOH A 65 665 695 HOH HOH . 
O 5 HOH A 66 666 658 HOH HOH . 
O 5 HOH A 67 667 605 HOH HOH . 
O 5 HOH A 68 668 632 HOH HOH . 
O 5 HOH A 69 669 614 HOH HOH . 
O 5 HOH A 70 670 655 HOH HOH . 
O 5 HOH A 71 671 657 HOH HOH . 
O 5 HOH A 72 672 651 HOH HOH . 
O 5 HOH A 73 673 692 HOH HOH . 
O 5 HOH A 74 674 688 HOH HOH . 
O 5 HOH A 75 675 621 HOH HOH . 
O 5 HOH A 76 676 702 HOH HOH . 
O 5 HOH A 77 677 611 HOH HOH . 
O 5 HOH A 78 678 620 HOH HOH . 
O 5 HOH A 79 679 680 HOH HOH . 
O 5 HOH A 80 680 673 HOH HOH . 
O 5 HOH A 81 681 616 HOH HOH . 
O 5 HOH A 82 682 681 HOH HOH . 
O 5 HOH A 83 683 683 HOH HOH . 
O 5 HOH A 84 684 698 HOH HOH . 
O 5 HOH A 85 685 668 HOH HOH . 
O 5 HOH A 86 686 635 HOH HOH . 
O 5 HOH A 87 687 618 HOH HOH . 
O 5 HOH A 88 688 623 HOH HOH . 
O 5 HOH A 89 689 613 HOH HOH . 
O 5 HOH A 90 690 646 HOH HOH . 
O 5 HOH A 91 691 678 HOH HOH . 
O 5 HOH A 92 692 662 HOH HOH . 
O 5 HOH A 93 693 627 HOH HOH . 
O 5 HOH A 94 694 690 HOH HOH . 
O 5 HOH A 95 695 617 HOH HOH . 
O 5 HOH A 96 696 648 HOH HOH . 
O 5 HOH A 97 697 703 HOH HOH . 
O 5 HOH A 98 698 679 HOH HOH . 
O 5 HOH A 99 699 672 HOH HOH . 
O 5 HOH A 100 700 622 HOH HOH . 
O 5 HOH A 101 701 699 HOH HOH . 
O 5 HOH A 102 702 633 HOH HOH . 
O 5 HOH A 103 703 686 HOH HOH . 
O 5 HOH A 104 704 666 HOH HOH . 
O 5 HOH A 105 705 677 HOH HOH . 
O 5 HOH A 106 706 706 HOH HOH . 
O 5 HOH A 107 707 676 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 . . . D 2 -17.266 11.415 -26.476 1 34.1 ? C1 NAG 503 A 1 
HETATM 2 C C2 NAG . . . D 2 -15.843 11.769 -26.923 1 38.83 ? C2 NAG 503 A 1 
HETATM 3 C C3 NAG . . . D 2 -15.845 12.272 -28.364 1 37.28 ? C3 NAG 503 A 1 
HETATM 4 C C4 NAG . . . D 2 -16.514 11.255 -29.275 1 38.83 ? C4 NAG 503 A 1 
HETATM 5 C C5 NAG . . . D 2 -17.926 10.99 -28.773 1 42.29 ? C5 NAG 503 A 1 
HETATM 6 C C6 NAG . . . D 2 -18.652 9.944 -29.585 1 39.51 ? C6 NAG 503 A 1 
HETATM 7 C C7 NAG . . . D 2 -14.135 12.536 -25.334 1 34.97 ? C7 NAG 503 A 1 
HETATM 8 C C8 NAG . . . D 2 -13.654 13.675 -24.488 1 33.23 ? C8 NAG 503 A 1 
HETATM 9 N N2 NAG . . . D 2 -15.247 12.76 -26.042 1 35.65 ? N2 NAG 503 A 1 
HETATM 10 O O3 NAG . . . D 2 -14.508 12.5 -28.792 1 35.91 ? O3 NAG 503 A 1 
HETATM 11 O O4 NAG . . . D 2 -16.564 11.734 -30.614 1 42.53 ? O4 NAG 503 A 1 
HETATM 12 O O5 NAG . . . D 2 -17.863 10.504 -27.424 1 34.72 ? O5 NAG 503 A 1 
HETATM 13 O O6 NAG . . . D 2 -18.329 8.632 -29.145 1 45.38 ? O6 NAG 503 A 1 
HETATM 14 O O7 NAG . . . D 2 -13.546 11.459 -25.372 1 31.98 ? O7 NAG 503 A 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           270 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           14 
#