data_3B9K
#
_model_server_result.job_id            8Ve8VMmNtlaL3gswaBVn5Q 
_model_server_result.datetime_utc      '2024-12-01 03:36:41' 
_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          3b9k 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":201}' 
#
_entry.id    3B9K 
#
_exptl.entry_id    3B9K 
_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    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            3B9K 
_cell.length_a            91.779 
_cell.length_b            92.747 
_cell.length_c            190.31 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3B9K 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA tetrameric 4 author_and_software_defined_assembly 1 
PISA tetrameric 4 author_and_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,I,K,L,M,N 1 1 
E,F,G,H,J,O,P,Q,R 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
? 5 I N N 
? 5 J 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 133 L CYS 134 1_555 A SG CYS 193 L CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? 
disulf ? disulf2 B SG CYS 22 H CYS 22 1_555 B SG CYS 95 H CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.102 ? 
disulf ? disulf3 C SG CYS 26 A CYS 26 1_555 C SG CYS 102 A CYS 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.58 ? 
disulf ? disulf4 D SG CYS 20 B CYS 20 1_555 D SG CYS 96 B CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf5 E SG CYS 133 C CYS 134 1_555 E SG CYS 193 C CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
disulf ? disulf6 F SG CYS 22 D CYS 22 1_555 F SG CYS 95 D CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.134 ? 
disulf ? disulf7 F SG CYS 144 D CYS 142 1_555 F SG CYS 197 D CYS 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? 
disulf ? disulf8 G SG CYS 26 E CYS 26 1_555 G SG CYS 102 E CYS 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.205 ? 
disulf ? disulf9 H SG CYS 20 F CYS 20 1_555 H SG CYS 96 F CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
covale ? covale1 C ND2 ASN 42 A ASN 42 1_555 I C1 NAG . A NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.46 ? 
covale ? covale2 G ND2 ASN 42 E ASN 42 1_555 J C1 NAG . E NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? 
#
_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                     3B9K 
_atom_sites.fract_transf_matrix[1][1]    0.010896 
_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]    0.010782 
_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]    0.005255 
_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
I 5 NAG A 1 201 242 NAG NAG . 
J 5 NAG E 1 201 242 NAG NAG . 
K 6 HOH L 1 301 3 HOH HOH . 
K 6 HOH L 2 302 7 HOH HOH . 
K 6 HOH L 3 303 8 HOH HOH . 
K 6 HOH L 4 304 10 HOH HOH . 
K 6 HOH L 5 305 15 HOH HOH . 
K 6 HOH L 6 306 18 HOH HOH . 
K 6 HOH L 7 307 37 HOH HOH . 
L 6 HOH H 1 301 1 HOH HOH . 
L 6 HOH H 2 302 23 HOH HOH . 
L 6 HOH H 3 303 24 HOH HOH . 
L 6 HOH H 4 304 25 HOH HOH . 
L 6 HOH H 5 305 35 HOH HOH . 
L 6 HOH H 6 306 36 HOH HOH . 
M 6 HOH A 1 301 22 HOH HOH . 
N 6 HOH B 1 201 21 HOH HOH . 
O 6 HOH C 1 301 2 HOH HOH . 
O 6 HOH C 2 302 6 HOH HOH . 
O 6 HOH C 3 303 9 HOH HOH . 
O 6 HOH C 4 304 11 HOH HOH . 
O 6 HOH C 5 305 12 HOH HOH . 
O 6 HOH C 6 306 16 HOH HOH . 
O 6 HOH C 7 307 29 HOH HOH . 
O 6 HOH C 8 308 30 HOH HOH . 
O 6 HOH C 9 309 31 HOH HOH . 
O 6 HOH C 10 310 32 HOH HOH . 
O 6 HOH C 11 311 33 HOH HOH . 
P 6 HOH D 1 301 4 HOH HOH . 
P 6 HOH D 2 302 5 HOH HOH . 
P 6 HOH D 3 303 14 HOH HOH . 
P 6 HOH D 4 304 17 HOH HOH . 
P 6 HOH D 5 305 19 HOH HOH . 
Q 6 HOH E 1 301 27 HOH HOH . 
R 6 HOH F 1 201 20 HOH HOH . 
R 6 HOH F 2 202 26 HOH HOH . 
R 6 HOH F 3 203 28 HOH HOH . 
R 6 HOH F 4 204 34 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 . . . J 5 5.85 -105.187 3.864 1 124.55 ? C1 NAG 201 E 1 
HETATM 2 C C2 NAG . . . J 5 5.332 -106.646 3.805 1 130.52 ? C2 NAG 201 E 1 
HETATM 3 C C3 NAG . . . J 5 5.662 -107.558 5.011 1 135.12 ? C3 NAG 201 E 1 
HETATM 4 C C4 NAG . . . J 5 6.802 -107.082 5.927 1 137.64 ? C4 NAG 201 E 1 
HETATM 5 C C5 NAG . . . J 5 6.833 -105.556 5.97 1 137.25 ? C5 NAG 201 E 1 
HETATM 6 C C6 NAG . . . J 5 7.95 -105.005 6.86 1 137.86 ? C6 NAG 201 E 1 
HETATM 7 C C7 NAG . . . J 5 3.175 -107.754 3.452 1 131.99 ? C7 NAG 201 E 1 
HETATM 8 C C8 NAG . . . J 5 2.599 -108.473 4.645 1 130.95 ? C8 NAG 201 E 1 
HETATM 9 N N2 NAG . . . J 5 3.885 -106.634 3.659 1 131.82 ? N2 NAG 201 E 1 
HETATM 10 O O3 NAG . . . J 5 5.882 -108.897 4.58 1 131.12 ? O3 NAG 201 E 1 
HETATM 11 O O4 NAG . . . J 5 6.653 -107.594 7.24 1 138.68 ? O4 NAG 201 E 1 
HETATM 12 O O5 NAG . . . J 5 7.032 -105.143 4.638 1 130.27 ? O5 NAG 201 E 1 
HETATM 13 O O6 NAG . . . J 5 7.421 -104.199 7.894 1 142.08 ? O6 NAG 201 E 1 
HETATM 14 O O7 NAG . . . J 5 2.972 -108.21 2.33 1 133.82 ? O7 NAG 201 E 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    12 
_model_server_stats.query_time_ms           279 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           14 
#