data_6XVP
#
_model_server_result.job_id            qWLdfYmawdgCWEs6CmhoiQ 
_model_server_result.datetime_utc      '2024-11-13 10:11:43' 
_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          6xvp 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":805}' 
#
_entry.id    6XVP 
#
_exptl.entry_id    6XVP 
_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    4 
_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         120 
_cell.entry_id            6XVP 
_cell.length_a            108.089 
_cell.length_b            108.089 
_cell.length_c            112.826 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6XVP 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        154 
_symmetry.space_group_name_Hall    'P 32 2"' 
_symmetry.space_group_name_H-M     'P 32 2 1' 
#
_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 
_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 D N N 
? 4 E N N 
? 4 F N N 
? 4 G 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 56 1_555 A SG CYS 11 A CYS 61 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? 
disulf ? disulf2 A SG CYS 29 A CYS 79 1_555 A SG CYS 684 A CYS 734 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf3 A SG CYS 37 A CYS 87 1_555 A SG CYS 644 A CYS 694 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
disulf ? disulf4 A SG CYS 92 A CYS 142 1_555 A SG CYS 360 A CYS 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf5 A SG CYS 183 A CYS 233 1_555 A SG CYS 191 A CYS 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? 
disulf ? disulf6 A SG CYS 570 A CYS 620 1_555 A SG CYS 696 A CYS 746 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
covale ? covale1 A ND2 ASN 94 A ASN 144 1_555 D C1 NAG . A NAG 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? 
covale ? covale2 A ND2 ASN 234 A ASN 284 1_555 E C1 NAG . A NAG 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? 
covale ? covale3 A ND2 ASN 274 A ASN 324 1_555 F C1 NAG . A NAG 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? 
covale ? covale4 A ND2 ASN 577 A ASN 627 1_555 G C1 NAG . A NAG 806 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? 
metalc ? metalc1 A NE2 HIS 533 A HIS 583 1_555 B ZN ZN . A ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? 
metalc ? metalc2 A NE2 HIS 537 A HIS 587 1_555 B ZN ZN . A ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.986 ? 
metalc ? metalc3 A OE1 GLU 596 A GLU 646 1_555 B ZN ZN . A ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.957 ? 
metalc ? metalc4 A OE2 GLU 596 A GLU 646 1_555 B ZN ZN . A ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.628 ? 
metalc ? metalc5 B ZN ZN . A ZN 801 1_555 C O39 D0Z . A D0Z 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.245 ? 
#
_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 327 n n 
C1 O1 NAG sing 328 n n 
C1 O5 NAG sing 329 n n 
C1 H1 NAG sing 330 n n 
C2 C3 NAG sing 331 n n 
C2 N2 NAG sing 332 n n 
C2 H2 NAG sing 333 n n 
C3 C4 NAG sing 334 n n 
C3 O3 NAG sing 335 n n 
C3 H3 NAG sing 336 n n 
C4 C5 NAG sing 337 n n 
C4 O4 NAG sing 338 n n 
C4 H4 NAG sing 339 n n 
C5 C6 NAG sing 340 n n 
C5 O5 NAG sing 341 n n 
C5 H5 NAG sing 342 n n 
C6 O6 NAG sing 343 n n 
C6 H61 NAG sing 344 n n 
C6 H62 NAG sing 345 n n 
C7 C8 NAG sing 346 n n 
C7 N2 NAG sing 347 n n 
C7 O7 NAG doub 348 n n 
C8 H81 NAG sing 349 n n 
C8 H82 NAG sing 350 n n 
C8 H83 NAG sing 351 n n 
N2 HN2 NAG sing 352 n n 
O1 HO1 NAG sing 353 n n 
O3 HO3 NAG sing 354 n n 
O4 HO4 NAG sing 355 n n 
O6 HO6 NAG sing 356 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                     6XVP 
_atom_sites.fract_transf_matrix[1][1]    0.009252 
_atom_sites.fract_transf_matrix[1][2]    0.005341 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.010683 
_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]    0.008863 
_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 ZN A 1 801 805 ZN ZN . 
C 3 D0Z A 1 802 901 D0Z SP4 . 
D 4 NAG A 1 803 902 NAG NAG . 
E 4 NAG A 1 804 903 NAG NAG . 
F 4 NAG A 1 805 904 NAG NAG . 
G 4 NAG A 1 806 905 NAG NAG . 
H 5 EDO A 1 807 1001 EDO EDO . 
I 5 EDO A 1 808 1101 EDO EDO . 
J 5 EDO A 1 809 1201 EDO EDO . 
K 6 HOH A 1 901 17 HOH HOH . 
K 6 HOH A 2 902 28 HOH HOH . 
K 6 HOH A 3 903 4 HOH HOH . 
K 6 HOH A 4 904 1 HOH HOH . 
K 6 HOH A 5 905 2 HOH HOH . 
K 6 HOH A 6 906 20 HOH HOH . 
K 6 HOH A 7 907 12 HOH HOH . 
K 6 HOH A 8 908 27 HOH HOH . 
K 6 HOH A 9 909 3 HOH HOH . 
K 6 HOH A 10 910 7 HOH HOH . 
K 6 HOH A 11 911 34 HOH HOH . 
K 6 HOH A 12 912 5 HOH HOH . 
K 6 HOH A 13 913 35 HOH HOH . 
K 6 HOH A 14 914 26 HOH HOH . 
K 6 HOH A 15 915 8 HOH HOH . 
K 6 HOH A 16 916 21 HOH HOH . 
K 6 HOH A 17 917 14 HOH HOH . 
K 6 HOH A 18 918 37 HOH HOH . 
K 6 HOH A 19 919 30 HOH HOH . 
K 6 HOH A 20 920 6 HOH HOH . 
K 6 HOH A 21 921 32 HOH HOH . 
K 6 HOH A 22 922 11 HOH HOH . 
K 6 HOH A 23 923 24 HOH HOH . 
K 6 HOH A 24 924 18 HOH HOH . 
K 6 HOH A 25 925 29 HOH HOH . 
K 6 HOH A 26 926 31 HOH HOH . 
K 6 HOH A 27 927 10 HOH HOH . 
K 6 HOH A 28 928 16 HOH HOH . 
K 6 HOH A 29 929 19 HOH HOH . 
K 6 HOH A 30 930 9 HOH HOH . 
K 6 HOH A 31 931 15 HOH HOH . 
K 6 HOH A 32 932 22 HOH HOH . 
K 6 HOH A 33 933 13 HOH HOH . 
K 6 HOH A 34 934 39 HOH HOH . 
K 6 HOH A 35 935 36 HOH HOH . 
K 6 HOH A 36 936 23 HOH HOH . 
K 6 HOH A 37 937 25 HOH HOH . 
K 6 HOH A 38 938 33 HOH HOH . 
K 6 HOH A 39 939 38 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 4 -14.265 10.911 -5.181 1 71.39 ? C1 NAG 805 A 1 
HETATM 2 C C2 NAG . . . F 4 -15.589 10.212 -5.519 1 77.07 ? C2 NAG 805 A 1 
HETATM 3 C C3 NAG . . . F 4 -15.752 8.944 -4.681 1 80.16 ? C3 NAG 805 A 1 
HETATM 4 C C4 NAG . . . F 4 -14.531 8.045 -4.821 1 79.58 ? C4 NAG 805 A 1 
HETATM 5 C C5 NAG . . . F 4 -13.27 8.827 -4.476 1 76.19 ? C5 NAG 805 A 1 
HETATM 6 C C6 NAG . . . F 4 -12.004 8.028 -4.683 1 70.88 ? C6 NAG 805 A 1 
HETATM 7 C C7 NAG . . . F 4 -17.43 11.638 -6.306 1 81.64 ? C7 NAG 805 A 1 
HETATM 8 C C8 NAG . . . F 4 -18.567 12.524 -5.896 1 83.45 ? C8 NAG 805 A 1 
HETATM 9 N N2 NAG . . . F 4 -16.719 11.103 -5.309 1 78.54 ? N2 NAG 805 A 1 
HETATM 10 O O3 NAG . . . F 4 -16.92 8.246 -5.097 1 81.86 ? O3 NAG 805 A 1 
HETATM 11 O O4 NAG . . . F 4 -14.645 6.927 -3.949 1 81.94 ? O4 NAG 805 A 1 
HETATM 12 O O5 NAG . . . F 4 -13.174 9.981 -5.322 1 80.5 ? O5 NAG 805 A 1 
HETATM 13 O O6 NAG . . . F 4 -10.874 8.684 -4.123 1 68.51 ? O6 NAG 805 A 1 
HETATM 14 O O7 NAG . . . F 4 -17.165 11.423 -7.485 1 82.65 ? O7 NAG 805 A 1 
HETATM 15 H H2 NAG . . . F 4 -15.561 9.953 -6.46 1 92.49 ? H2 NAG 805 A 1 
HETATM 16 H H3 NAG . . . F 4 -15.849 9.199 -3.744 1 96.2 ? H3 NAG 805 A 1 
HETATM 17 H H4 NAG . . . F 4 -14.471 7.725 -5.741 1 95.5 ? H4 NAG 805 A 1 
HETATM 18 H H5 NAG . . . F 4 -13.315 9.114 -3.544 1 91.43 ? H5 NAG 805 A 1 
HETATM 19 H H61 NAG . . . F 4 -11.858 7.904 -5.64 1 85.06 ? H61 NAG 805 A 1 
HETATM 20 H H62 NAG . . . F 4 -12.106 7.154 -4.26 1 85.06 ? H62 NAG 805 A 1 
HETATM 21 H H81 NAG . . . F 4 -19.106 12.744 -6.678 1 100.14 ? H81 NAG 805 A 1 
HETATM 22 H H82 NAG . . . F 4 -18.214 13.344 -5.501 1 100.14 ? H82 NAG 805 A 1 
HETATM 23 H H83 NAG . . . F 4 -19.12 12.059 -5.239 1 100.14 ? H83 NAG 805 A 1 
HETATM 24 H HN2 NAG . . . F 4 -16.955 11.306 -4.452 1 94.25 ? HN2 NAG 805 A 1 
HETATM 25 H HO3 NAG . . . F 4 -17.131 7.634 -4.49 1 98.23 ? HO3 NAG 805 A 1 
HETATM 26 H HO4 NAG . . . F 4 -14.355 6.197 -4.364 1 98.33 ? HO4 NAG 805 A 1 
HETATM 27 H HO6 NAG . . . F 4 -10.166 8.151 -4.175 1 82.21 ? HO6 NAG 805 A 1 
#
_model_server_stats.io_time_ms              31 
_model_server_stats.parse_time_ms           27 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           253 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           27 
#