data_6T9P
#
_model_server_result.job_id            6PIWbWCwjSi6is1pbZqVFw 
_model_server_result.datetime_utc      '2024-12-21 17:54:29' 
_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          6t9p 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":602}' 
#
_entry.id    6T9P 
#
_exptl.entry_id    6T9P 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              221.208 
_entity.id                          5 
_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            6T9P 
_cell.length_a            154.14 
_cell.length_b            154.14 
_cell.length_c            127.52 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6T9P 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        97 
_symmetry.space_group_name_Hall    'I 4 2' 
_symmetry.space_group_name_H-M     'I 4 2 2' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
PISA octameric 8 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 1 1 
A,B,C,D,E,F,G,H,I,J,K,L 2 1,2,3,4,5,6,7,8 
#
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' 2_775 -x+2,-y+2,z -1 0 0 0 -1 0 0 0 1 308.28 308.28 0 
3 'crystal symmetry operation' 3_755 -y+2,x,z 0 -1 0 1 0 0 0 0 1 308.28 0 0 
4 'crystal symmetry operation' 4_575 y,-x+2,z 0 1 0 -1 0 0 0 0 1 0 308.28 0 
5 'crystal symmetry operation' 5_756 -x+2,y,-z+1 -1 0 0 0 1 0 0 0 -1 308.28 0 127.52 
6 'crystal symmetry operation' 6_576 x,-y+2,-z+1 1 0 0 0 -1 0 0 0 -1 0 308.28 127.52 
7 'crystal symmetry operation' 7_556 y,x,-z+1 0 1 0 1 0 0 0 0 -1 0 0 127.52 
8 'crystal symmetry operation' 8_776 -y+2,-x+2,-z+1 0 -1 0 -1 0 0 0 0 -1 308.28 308.28 127.52 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 5 F N N 
? 5 G N N 
? 5 H N N 
#
loop_
_pdbx_entity_branch.entity_id
_pdbx_entity_branch.type
2 oligosaccharide 
3 oligosaccharide 
#
loop_
_pdbx_entity_branch_link.link_id
_pdbx_entity_branch_link.details
_pdbx_entity_branch_link.entity_id
_pdbx_entity_branch_link.entity_branch_list_num_1
_pdbx_entity_branch_link.entity_branch_list_num_2
_pdbx_entity_branch_link.comp_id_1
_pdbx_entity_branch_link.comp_id_2
_pdbx_entity_branch_link.atom_id_1
_pdbx_entity_branch_link.leaving_atom_id_1
_pdbx_entity_branch_link.atom_stereo_config_1
_pdbx_entity_branch_link.atom_id_2
_pdbx_entity_branch_link.leaving_atom_id_2
_pdbx_entity_branch_link.atom_stereo_config_2
_pdbx_entity_branch_link.value_order
1 ? 2 2 1 FUC NAG C1 O1 . O6 HO6 . sing 
2 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 
3 ? 3 3 1 TGY NAG C2 O2 . O6 HO6 . 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
2 n B NAG 1 B 1 NAG B 1 NAG 
2 n B FUC 2 B 2 FUC B 2 FUC 
2 n C NAG 1 C 1 NAG C 1 NAG 
2 n C FUC 2 C 2 FUC C 2 FUC 
3 n D NAG 1 D 1 NAG D 1 NAG 
3 n D NAG 2 D 2 NAG D 2 NAG 
3 n D TGY 3 D 3 TGY D 3 FUC 
#
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 65 A CYS 65 1_555 A SG CYS 92 A CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? 
disulf ? disulf2 A SG CYS 252 A CYS 252 1_555 A SG CYS 263 A CYS 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf3 A SG CYS 400 A CYS 400 1_555 A SG CYS 519 A CYS 519 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? 
covale ? covale1 A ND2 ASN 57 A ASN 57 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? 
covale ? covale2 A ND2 ASN 106 A ASN 106 1_555 F C1 NAG . A NAG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? 
covale ? covale3 A ND2 ASN 241 A ASN 241 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.463 ? 
covale ? covale4 A ND2 ASN 256 A ASN 256 1_555 G C1 NAG . A NAG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? 
covale ? covale5 A ND2 ASN 341 A ASN 341 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? 
covale ? covale6 A ND2 ASN 485 A ASN 485 1_555 H C1 NAG . A NAG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? 
covale ? covale7 B O6 NAG . B NAG 1 1_555 B C1 FUC . B FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? 
covale ? covale8 C O6 NAG . C NAG 1 1_555 C C1 FUC . C FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? 
covale ? covale9 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? 
covale ? covale10 D O6 NAG . D NAG 1 1_555 D C2 TGY . D TGY 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.375 ? 
#
_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 323 n n 
C1 O1 NAG sing 324 n n 
C1 O5 NAG sing 325 n n 
C1 H1 NAG sing 326 n n 
C2 C3 NAG sing 327 n n 
C2 N2 NAG sing 328 n n 
C2 H2 NAG sing 329 n n 
C3 C4 NAG sing 330 n n 
C3 O3 NAG sing 331 n n 
C3 H3 NAG sing 332 n n 
C4 C5 NAG sing 333 n n 
C4 O4 NAG sing 334 n n 
C4 H4 NAG sing 335 n n 
C5 C6 NAG sing 336 n n 
C5 O5 NAG sing 337 n n 
C5 H5 NAG sing 338 n n 
C6 O6 NAG sing 339 n n 
C6 H61 NAG sing 340 n n 
C6 H62 NAG sing 341 n n 
C7 C8 NAG sing 342 n n 
C7 N2 NAG sing 343 n n 
C7 O7 NAG doub 344 n n 
C8 H81 NAG sing 345 n n 
C8 H82 NAG sing 346 n n 
C8 H83 NAG sing 347 n n 
N2 HN2 NAG sing 348 n n 
O1 HO1 NAG sing 349 n n 
O3 HO3 NAG sing 350 n n 
O4 HO4 NAG sing 351 n n 
O6 HO6 NAG sing 352 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                     6T9P 
_atom_sites.fract_transf_matrix[1][1]    0.006488 
_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]    0.006488 
_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]    0.007842 
_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 GOL A 1 601 601 GOL GOL . 
F 5 NAG A 1 602 605 NAG NAG . 
G 5 NAG A 1 603 608 NAG NAG . 
H 5 NAG A 1 604 612 NAG NAG . 
I 6 SO4 A 1 605 613 SO4 SO4 . 
J 6 SO4 A 1 606 614 SO4 SO4 . 
K 7 MXB A 1 607 757 MXB MXB . 
L 8 HOH A 1 701 708 HOH HOH . 
L 8 HOH A 2 702 702 HOH HOH . 
L 8 HOH A 3 703 716 HOH HOH . 
L 8 HOH A 4 704 713 HOH HOH . 
L 8 HOH A 5 705 724 HOH HOH . 
L 8 HOH A 6 706 721 HOH HOH . 
L 8 HOH A 7 707 750 HOH HOH . 
L 8 HOH A 8 708 703 HOH HOH . 
L 8 HOH A 9 709 718 HOH HOH . 
L 8 HOH A 10 710 701 HOH HOH . 
L 8 HOH A 11 711 706 HOH HOH . 
L 8 HOH A 12 712 710 HOH HOH . 
L 8 HOH A 13 713 705 HOH HOH . 
L 8 HOH A 14 714 728 HOH HOH . 
L 8 HOH A 15 715 704 HOH HOH . 
L 8 HOH A 16 716 715 HOH HOH . 
L 8 HOH A 17 717 711 HOH HOH . 
L 8 HOH A 18 718 739 HOH HOH . 
L 8 HOH A 19 719 723 HOH HOH . 
L 8 HOH A 20 720 707 HOH HOH . 
L 8 HOH A 21 721 712 HOH HOH . 
L 8 HOH A 22 722 714 HOH HOH . 
L 8 HOH A 23 723 720 HOH HOH . 
L 8 HOH A 24 724 726 HOH HOH . 
L 8 HOH A 25 725 709 HOH HOH . 
L 8 HOH A 26 726 719 HOH HOH . 
L 8 HOH A 27 727 736 HOH HOH . 
L 8 HOH A 28 728 729 HOH HOH . 
L 8 HOH A 29 729 742 HOH HOH . 
L 8 HOH A 30 730 717 HOH HOH . 
L 8 HOH A 31 731 733 HOH HOH . 
L 8 HOH A 32 732 732 HOH HOH . 
L 8 HOH A 33 733 731 HOH HOH . 
L 8 HOH A 34 734 734 HOH HOH . 
L 8 HOH A 35 735 727 HOH HOH . 
L 8 HOH A 36 736 737 HOH HOH . 
L 8 HOH A 37 737 735 HOH HOH . 
L 8 HOH A 38 738 725 HOH HOH . 
L 8 HOH A 39 739 730 HOH HOH . 
L 8 HOH A 40 740 722 HOH HOH . 
L 8 HOH A 41 741 741 HOH HOH . 
L 8 HOH A 42 742 743 HOH HOH . 
L 8 HOH A 43 743 738 HOH HOH . 
L 8 HOH A 44 744 747 HOH HOH . 
L 8 HOH A 45 745 745 HOH HOH . 
L 8 HOH A 46 746 740 HOH HOH . 
L 8 HOH A 47 747 746 HOH HOH . 
L 8 HOH A 48 748 744 HOH HOH . 
L 8 HOH A 49 749 749 HOH HOH . 
L 8 HOH A 50 750 751 HOH HOH . 
L 8 HOH A 51 751 748 HOH HOH . 
L 8 HOH A 52 752 753 HOH HOH . 
L 8 HOH A 53 753 755 HOH HOH . 
L 8 HOH A 54 754 752 HOH HOH . 
L 8 HOH A 55 755 756 HOH HOH . 
L 8 HOH A 56 756 754 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 . . . F 5 135.268 149.024 27.113 1 99.78 ? C1 NAG 602 A 1 
HETATM 2 C C2 NAG . . . F 5 135.545 150.071 26.017 1 101.11 ? C2 NAG 602 A 1 
HETATM 3 C C3 NAG . . . F 5 137.052 150.231 25.81 1 101.56 ? C3 NAG 602 A 1 
HETATM 4 C C4 NAG . . . F 5 137.738 150.568 27.129 1 104.19 ? C4 NAG 602 A 1 
HETATM 5 C C5 NAG . . . F 5 137.429 149.477 28.157 1 102.34 ? C5 NAG 602 A 1 
HETATM 6 C C6 NAG . . . F 5 138.041 149.726 29.521 1 105.05 ? C6 NAG 602 A 1 
HETATM 7 C C7 NAG . . . F 5 133.589 149.893 24.527 1 93.36 ? C7 NAG 602 A 1 
HETATM 8 C C8 NAG . . . F 5 133.109 149.48 23.173 1 88.32 ? C8 NAG 602 A 1 
HETATM 9 N N2 NAG . . . F 5 134.895 149.72 24.762 1 97.5 ? N2 NAG 602 A 1 
HETATM 10 O O3 NAG . . . F 5 137.308 151.24 24.84 1 97.35 ? O3 NAG 602 A 1 
HETATM 11 O O4 NAG . . . F 5 139.143 150.713 26.939 1 100.25 ? O4 NAG 602 A 1 
HETATM 12 O O5 NAG . . . F 5 136.006 149.384 28.344 1 98.16 ? O5 NAG 602 A 1 
HETATM 13 O O6 NAG . . . F 5 139.336 150.308 29.434 1 114.06 ? O6 NAG 602 A 1 
HETATM 14 O O7 NAG . . . F 5 132.83 150.359 25.371 1 92.1 ? O7 NAG 602 A 1 
#
_model_server_stats.io_time_ms              37 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           283 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           14 
#