data_2NQY
#
_model_server_result.job_id            CYWSuECVSpDfhWuiJGTeHw 
_model_server_result.datetime_utc      '2024-10-19 21:36:08' 
_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          2nqy 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":3002}' 
#
_entry.id    2NQY 
#
_exptl.entry_id    2NQY 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              150.13 
_entity.id                          3 
_entity.src_method                  man 
_entity.type                        non-polymer 
_entity.pdbx_description            beta-D-xylopyranose 
_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            2NQY 
_cell.length_a            78.363 
_cell.length_b            78.363 
_cell.length_c            140.84 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2NQY 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        96 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 43 21 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 
? monomeric 1 author_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,E,G 1 1 
B,D,F,H 2 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
? 3 E N N 
? 3 F N N 
#
_pdbx_entity_branch.entity_id    2 
_pdbx_entity_branch.type         oligosaccharide 
#
_pdbx_entity_branch_link.link_id                     1 
_pdbx_entity_branch_link.details                     ? 
_pdbx_entity_branch_link.entity_id                   2 
_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                   XYP 
_pdbx_entity_branch_link.comp_id_2                   XYP 
_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
2 n C XYP 1 C 1 XYP Y 1001 BXP 
2 n C XYP 2 C 2 XYP Y 1001 BXP 
2 n D XYP 1 D 1 XYP X 1001 BXP 
2 n D XYP 2 D 2 XYP X 1001 BXP 
#
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
covale ? covale1 C O4 XYP . C XYP 1 1_555 C C1 XYP . C XYP 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 sing 
covale ? covale2 D O4 XYP . D XYP 1 1_555 D C1 XYP . D XYP 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 sing 
#
_chem_comp.formula           'C5 H10 O5' 
_chem_comp.formula_weight    150.13 
_chem_comp.id                XYP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              beta-D-xylopyranose 
_chem_comp.type              'd-saccharide, beta linking' 
_chem_comp.pdbx_synonyms     beta-D-xylose;D-xylose;xylose 
#
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
O1 C1 XYP sing 376 n n 
O1 HO1 XYP sing 377 n n 
C1 C2 XYP sing 378 n n 
C1 O5 XYP sing 379 n n 
C1 H1 XYP sing 380 n n 
C2 C3 XYP sing 381 n n 
C2 O2 XYP sing 382 n n 
C2 H2 XYP sing 383 n n 
C3 C4 XYP sing 384 n n 
C3 O3 XYP sing 385 n n 
C3 H3 XYP sing 386 n n 
C4 C5 XYP sing 387 n n 
C4 O4 XYP sing 388 n n 
C4 H4 XYP sing 389 n n 
C5 O5 XYP sing 390 n n 
C5 H51 XYP sing 391 n n 
C5 H52 XYP sing 392 n n 
O2 HO2 XYP sing 393 n n 
O3 HO3 XYP sing 394 n n 
O4 HO4 XYP sing 395 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
XYP DXylpb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 
XYP b-D-xylopyranose 'COMMON NAME' GMML 1 
XYP b-D-Xylp 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 
XYP Xyl 'SNFG CARBOHYDRATE SYMBOL' GMML 1 
#
_atom_sites.entry_id                     2NQY 
_atom_sites.fract_transf_matrix[1][1]    0.012761 
_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]    0.012761 
_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]    0.0071 
_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 3 XYP A 1 3001 1001 XYP XYP . 
F 3 XYP B 1 3002 1002 XYP XYP . 
G 4 HOH A 1 3002 1 HOH HOH . 
G 4 HOH A 2 3003 2 HOH HOH . 
G 4 HOH A 3 3004 4 HOH HOH . 
G 4 HOH A 4 3005 9 HOH HOH . 
G 4 HOH A 5 3006 10 HOH HOH . 
G 4 HOH A 6 3007 11 HOH HOH . 
G 4 HOH A 7 3008 13 HOH HOH . 
G 4 HOH A 8 3009 16 HOH HOH . 
G 4 HOH A 9 3010 17 HOH HOH . 
G 4 HOH A 10 3011 19 HOH HOH . 
G 4 HOH A 11 3012 24 HOH HOH . 
G 4 HOH A 12 3013 25 HOH HOH . 
G 4 HOH A 13 3014 27 HOH HOH . 
G 4 HOH A 14 3015 29 HOH HOH . 
G 4 HOH A 15 3016 33 HOH HOH . 
G 4 HOH A 16 3017 37 HOH HOH . 
G 4 HOH A 17 3018 44 HOH HOH . 
G 4 HOH A 18 3019 46 HOH HOH . 
G 4 HOH A 19 3020 52 HOH HOH . 
G 4 HOH A 20 3021 53 HOH HOH . 
G 4 HOH A 21 3022 55 HOH HOH . 
G 4 HOH A 22 3023 56 HOH HOH . 
G 4 HOH A 23 3024 57 HOH HOH . 
G 4 HOH A 24 3025 61 HOH HOH . 
G 4 HOH A 25 3026 65 HOH HOH . 
G 4 HOH A 26 3027 66 HOH HOH . 
G 4 HOH A 27 3028 67 HOH HOH . 
G 4 HOH A 28 3029 68 HOH HOH . 
G 4 HOH A 29 3030 71 HOH HOH . 
G 4 HOH A 30 3031 72 HOH HOH . 
G 4 HOH A 31 3032 76 HOH HOH . 
G 4 HOH A 32 3033 81 HOH HOH . 
G 4 HOH A 33 3034 85 HOH HOH . 
G 4 HOH A 34 3035 86 HOH HOH . 
G 4 HOH A 35 3036 92 HOH HOH . 
G 4 HOH A 36 3037 94 HOH HOH . 
G 4 HOH A 37 3038 95 HOH HOH . 
G 4 HOH A 38 3039 106 HOH HOH . 
G 4 HOH A 39 3040 111 HOH HOH . 
G 4 HOH A 40 3041 112 HOH HOH . 
G 4 HOH A 41 3042 114 HOH HOH . 
G 4 HOH A 42 3043 115 HOH HOH . 
G 4 HOH A 43 3044 116 HOH HOH . 
G 4 HOH A 44 3045 117 HOH HOH . 
G 4 HOH A 45 3046 120 HOH HOH . 
G 4 HOH A 46 3047 123 HOH HOH . 
G 4 HOH A 47 3048 128 HOH HOH . 
G 4 HOH A 48 3049 131 HOH HOH . 
G 4 HOH A 49 3050 133 HOH HOH . 
G 4 HOH A 50 3051 134 HOH HOH . 
G 4 HOH A 51 3052 136 HOH HOH . 
G 4 HOH A 52 3053 137 HOH HOH . 
G 4 HOH A 53 3054 139 HOH HOH . 
G 4 HOH A 54 3055 144 HOH HOH . 
G 4 HOH A 55 3056 145 HOH HOH . 
G 4 HOH A 56 3057 149 HOH HOH . 
G 4 HOH A 57 3058 154 HOH HOH . 
G 4 HOH A 58 3059 157 HOH HOH . 
G 4 HOH A 59 3060 158 HOH HOH . 
G 4 HOH A 60 3061 160 HOH HOH . 
G 4 HOH A 61 3062 162 HOH HOH . 
G 4 HOH A 62 3063 163 HOH HOH . 
G 4 HOH A 63 3064 165 HOH HOH . 
G 4 HOH A 64 3065 166 HOH HOH . 
G 4 HOH A 65 3066 167 HOH HOH . 
G 4 HOH A 66 3067 171 HOH HOH . 
G 4 HOH A 67 3068 173 HOH HOH . 
G 4 HOH A 68 3069 174 HOH HOH . 
H 4 HOH B 1 3003 5 HOH HOH . 
H 4 HOH B 2 3004 6 HOH HOH . 
H 4 HOH B 3 3005 7 HOH HOH . 
H 4 HOH B 4 3006 8 HOH HOH . 
H 4 HOH B 5 3007 12 HOH HOH . 
H 4 HOH B 6 3008 14 HOH HOH . 
H 4 HOH B 7 3009 20 HOH HOH . 
H 4 HOH B 8 3010 21 HOH HOH . 
H 4 HOH B 9 3011 22 HOH HOH . 
H 4 HOH B 10 3012 23 HOH HOH . 
H 4 HOH B 11 3013 26 HOH HOH . 
H 4 HOH B 12 3014 28 HOH HOH . 
H 4 HOH B 13 3015 31 HOH HOH . 
H 4 HOH B 14 3016 32 HOH HOH . 
H 4 HOH B 15 3017 34 HOH HOH . 
H 4 HOH B 16 3018 36 HOH HOH . 
H 4 HOH B 17 3019 39 HOH HOH . 
H 4 HOH B 18 3020 41 HOH HOH . 
H 4 HOH B 19 3021 42 HOH HOH . 
H 4 HOH B 20 3022 45 HOH HOH . 
H 4 HOH B 21 3023 48 HOH HOH . 
H 4 HOH B 22 3024 49 HOH HOH . 
H 4 HOH B 23 3025 50 HOH HOH . 
H 4 HOH B 24 3026 58 HOH HOH . 
H 4 HOH B 25 3027 59 HOH HOH . 
H 4 HOH B 26 3028 60 HOH HOH . 
H 4 HOH B 27 3029 62 HOH HOH . 
H 4 HOH B 28 3030 63 HOH HOH . 
H 4 HOH B 29 3031 69 HOH HOH . 
H 4 HOH B 30 3032 73 HOH HOH . 
H 4 HOH B 31 3033 74 HOH HOH . 
H 4 HOH B 32 3034 75 HOH HOH . 
H 4 HOH B 33 3035 77 HOH HOH . 
H 4 HOH B 34 3036 78 HOH HOH . 
H 4 HOH B 35 3037 79 HOH HOH . 
H 4 HOH B 36 3038 80 HOH HOH . 
H 4 HOH B 37 3039 82 HOH HOH . 
H 4 HOH B 38 3040 83 HOH HOH . 
H 4 HOH B 39 3041 84 HOH HOH . 
H 4 HOH B 40 3042 88 HOH HOH . 
H 4 HOH B 41 3043 89 HOH HOH . 
H 4 HOH B 42 3044 90 HOH HOH . 
H 4 HOH B 43 3045 91 HOH HOH . 
H 4 HOH B 44 3046 93 HOH HOH . 
H 4 HOH B 45 3047 99 HOH HOH . 
H 4 HOH B 46 3048 100 HOH HOH . 
H 4 HOH B 47 3049 101 HOH HOH . 
H 4 HOH B 48 3050 102 HOH HOH . 
H 4 HOH B 49 3051 103 HOH HOH . 
H 4 HOH B 50 3052 104 HOH HOH . 
H 4 HOH B 51 3053 105 HOH HOH . 
H 4 HOH B 52 3054 107 HOH HOH . 
H 4 HOH B 53 3055 108 HOH HOH . 
H 4 HOH B 54 3056 109 HOH HOH . 
H 4 HOH B 55 3057 118 HOH HOH . 
H 4 HOH B 56 3058 119 HOH HOH . 
H 4 HOH B 57 3059 121 HOH HOH . 
H 4 HOH B 58 3060 122 HOH HOH . 
H 4 HOH B 59 3061 124 HOH HOH . 
H 4 HOH B 60 3062 125 HOH HOH . 
H 4 HOH B 61 3063 126 HOH HOH . 
H 4 HOH B 62 3064 130 HOH HOH . 
H 4 HOH B 63 3065 140 HOH HOH . 
H 4 HOH B 64 3066 143 HOH HOH . 
H 4 HOH B 65 3067 147 HOH HOH . 
H 4 HOH B 66 3068 151 HOH HOH . 
H 4 HOH B 67 3069 152 HOH HOH . 
H 4 HOH B 68 3070 159 HOH HOH . 
H 4 HOH B 69 3071 161 HOH HOH . 
H 4 HOH B 70 3072 164 HOH HOH . 
H 4 HOH B 71 3073 168 HOH HOH . 
H 4 HOH B 72 3074 169 HOH HOH . 
H 4 HOH B 73 3075 170 HOH HOH . 
H 4 HOH B 74 3076 172 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 O O1 XYP . . . F 3 25.922 10.271 7.656 0.7 30.98 ? O1 XYP 3002 B 1 
HETATM 2 C C1 XYP . . . F 3 26.691 9.198 8.169 0.7 32.77 ? C1 XYP 3002 B 1 
HETATM 3 C C2 XYP . . . F 3 28.129 9.422 7.712 0.7 33.52 ? C2 XYP 3002 B 1 
HETATM 4 C C3 XYP . . . F 3 28.939 8.199 8.167 0.7 35.09 ? C3 XYP 3002 B 1 
HETATM 5 C C4 XYP . . . F 3 28.777 8.052 9.685 0.7 35.51 ? C4 XYP 3002 B 1 
HETATM 6 C C5 XYP . . . F 3 27.307 7.953 10.123 0.7 34.03 ? C5 XYP 3002 B 1 
HETATM 7 O O2 XYP . . . F 3 28.09 9.596 6.289 0.7 33.35 ? O2 XYP 3002 B 1 
HETATM 8 O O3 XYP . . . F 3 30.35 8.246 7.864 0.7 35.64 ? O3 XYP 3002 B 1 
HETATM 9 O O4 XYP . . . F 3 29.538 6.928 10.128 0.7 36.06 ? O4 XYP 3002 B 1 
HETATM 10 O O5 XYP . . . F 3 26.574 9.078 9.609 0.7 33.9 ? O5 XYP 3002 B 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           269 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           10 
#