data_6II8
#
_model_server_result.job_id            07C21HkrSEB8U-zgz5eIKg 
_model_server_result.datetime_utc      '2024-11-27 19:25:57' 
_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          6ii8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"T","auth_seq_id":602}' 
#
_entry.id    6II8 
#
_exptl.entry_id    6II8 
_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    9 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          108.99 
_cell.angle_gamma         90 
_cell.entry_id            6II8 
_cell.length_a            203.409 
_cell.length_b            116.062 
_cell.length_c            185.207 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6II8 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    dodecameric 
_pdbx_struct_assembly.oligomeric_count      12 
_pdbx_struct_assembly.details               author_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,P,Q,R,S,T,U 
_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
? 5 M N N 
? 5 N N N 
? 5 O N N 
? 5 P N N 
? 5 Q N N 
? 5 R N N 
? 5 S N N 
? 5 T N N 
? 5 U 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 4 A CYS 4 1_555 B SG CYS 137 B CYS 458 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf2 A SG CYS 42 A CYS 42 1_555 A SG CYS 268 A CYS 268 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? 
disulf ? disulf3 A SG CYS 54 A CYS 54 1_555 A SG CYS 66 A CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? 
disulf ? disulf4 A SG CYS 87 A CYS 87 1_555 A SG CYS 129 A CYS 129 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? 
disulf ? disulf5 A SG CYS 272 A CYS 272 1_555 A SG CYS 296 A CYS 296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? 
disulf ? disulf6 B SG CYS 144 B CYS 465 1_555 B SG CYS 148 B CYS 469 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? 
disulf ? disulf7 C SG CYS 4 C CYS 4 1_555 D SG CYS 137 D CYS 458 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
disulf ? disulf8 C SG CYS 42 C CYS 42 1_555 C SG CYS 268 C CYS 268 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? 
disulf ? disulf9 C SG CYS 54 C CYS 54 1_555 C SG CYS 66 C CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? 
disulf ? disulf10 C SG CYS 87 C CYS 87 1_555 C SG CYS 129 C CYS 129 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? 
disulf ? disulf11 C SG CYS 272 C CYS 272 1_555 C SG CYS 296 C CYS 296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? 
disulf ? disulf12 D SG CYS 144 D CYS 465 1_555 D SG CYS 148 D CYS 469 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? 
disulf ? disulf13 E SG CYS 4 E CYS 4 1_555 F SG CYS 137 F CYS 458 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf14 E SG CYS 42 E CYS 42 1_555 E SG CYS 268 E CYS 268 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? 
disulf ? disulf15 E SG CYS 54 E CYS 54 1_555 E SG CYS 66 E CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? 
disulf ? disulf16 E SG CYS 87 E CYS 87 1_555 E SG CYS 129 E CYS 129 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf17 E SG CYS 272 E CYS 272 1_555 E SG CYS 296 E CYS 296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? 
disulf ? disulf18 F SG CYS 144 F CYS 465 1_555 F SG CYS 148 F CYS 469 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? 
disulf ? disulf19 G SG CYS 22 J CYS 41 1_555 G SG CYS 96 J CYS 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? 
disulf ? disulf20 H SG CYS 22 K CYS 41 1_555 H SG CYS 91 K CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf21 I SG CYS 22 G CYS 41 1_555 I SG CYS 96 G CYS 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
disulf ? disulf22 I SG CYS 152 G CYS 171 1_555 I SG CYS 208 G CYS 227 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf23 J SG CYS 22 H CYS 41 1_555 J SG CYS 96 H CYS 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? 
disulf ? disulf24 J SG CYS 152 H CYS 171 1_555 J SG CYS 208 H CYS 227 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf25 K SG CYS 22 I CYS 41 1_555 K SG CYS 91 I CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
disulf ? disulf26 K SG CYS 138 I CYS 157 1_555 K SG CYS 197 I CYS 216 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf27 L SG CYS 22 L CYS 41 1_555 L SG CYS 91 L CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? 
disulf ? disulf28 L SG CYS 138 L CYS 157 1_555 L SG CYS 197 L CYS 216 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
covale ? covale1 A ND2 ASN 28 A ASN 28 1_555 M C1 NAG . A NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.46 ? 
covale ? covale2 A ND2 ASN 231 A ASN 231 1_555 N C1 NAG . A NAG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? 
covale ? covale3 B ND2 ASN 82 B ASN 403 1_555 O C1 NAG . B NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? 
covale ? covale4 C ND2 ASN 28 C ASN 28 1_555 P C1 NAG . C NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? 
covale ? covale5 C ND2 ASN 231 C ASN 231 1_555 Q C1 NAG . C NAG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? 
covale ? covale6 D ND2 ASN 82 D ASN 403 1_555 R C1 NAG . D NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? 
covale ? covale7 E ND2 ASN 28 E ASN 28 1_555 S C1 NAG . E NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? 
covale ? covale8 E ND2 ASN 231 E ASN 231 1_555 T C1 NAG . E NAG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? 
covale ? covale9 F ND2 ASN 82 F ASN 403 1_555 U C1 NAG . F NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? 
#
_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 235 n n 
C1 O1 NAG sing 236 n n 
C1 O5 NAG sing 237 n n 
C1 H1 NAG sing 238 n n 
C2 C3 NAG sing 239 n n 
C2 N2 NAG sing 240 n n 
C2 H2 NAG sing 241 n n 
C3 C4 NAG sing 242 n n 
C3 O3 NAG sing 243 n n 
C3 H3 NAG sing 244 n n 
C4 C5 NAG sing 245 n n 
C4 O4 NAG sing 246 n n 
C4 H4 NAG sing 247 n n 
C5 C6 NAG sing 248 n n 
C5 O5 NAG sing 249 n n 
C5 H5 NAG sing 250 n n 
C6 O6 NAG sing 251 n n 
C6 H61 NAG sing 252 n n 
C6 H62 NAG sing 253 n n 
C7 C8 NAG sing 254 n n 
C7 N2 NAG sing 255 n n 
C7 O7 NAG doub 256 n n 
C8 H81 NAG sing 257 n n 
C8 H82 NAG sing 258 n n 
C8 H83 NAG sing 259 n n 
N2 HN2 NAG sing 260 n n 
O1 HO1 NAG sing 261 n n 
O3 HO3 NAG sing 262 n n 
O4 HO4 NAG sing 263 n n 
O6 HO6 NAG sing 264 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                     6II8 
_atom_sites.fract_transf_matrix[1][1]    0.004916 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001692 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.008616 
_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]    0.00571 
_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
M 5 NAG A 1 601 601 NAG NAG . 
N 5 NAG A 1 602 611 NAG NAG . 
O 5 NAG B 1 501 501 NAG NAG . 
P 5 NAG C 1 601 601 NAG NAG . 
Q 5 NAG C 1 602 611 NAG NAG . 
R 5 NAG D 1 501 501 NAG NAG . 
S 5 NAG E 1 601 601 NAG NAG . 
T 5 NAG E 1 602 611 NAG NAG . 
U 5 NAG F 1 501 501 NAG NAG . 
#
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 . . . T 5 -23.807 29.793 -19.318 1 93.54 ? C1 NAG 602 E 1 
HETATM 2 C C2 NAG . . . T 5 -22.935 29.845 -18.06 1 94.42 ? C2 NAG 602 E 1 
HETATM 3 C C3 NAG . . . T 5 -22.719 31.3 -17.626 1 100.23 ? C3 NAG 602 E 1 
HETATM 4 C C4 NAG . . . T 5 -22.19 32.142 -18.787 1 101.5 ? C4 NAG 602 E 1 
HETATM 5 C C5 NAG . . . T 5 -23.074 31.98 -20.027 1 95.73 ? C5 NAG 602 E 1 
HETATM 6 C C6 NAG . . . T 5 -22.516 32.67 -21.256 1 92.5 ? C6 NAG 602 E 1 
HETATM 7 C C7 NAG . . . T 5 -23.45 27.729 -16.902 1 92.53 ? C7 NAG 602 E 1 
HETATM 8 C C8 NAG . . . T 5 -24.107 27.1 -15.703 1 75.31 ? C8 NAG 602 E 1 
HETATM 9 N N2 NAG . . . T 5 -23.52 29.066 -16.977 1 99.4 ? N2 NAG 602 E 1 
HETATM 10 O O3 NAG . . . T 5 -21.827 31.342 -16.513 1 87.61 ? O3 NAG 602 E 1 
HETATM 11 O O4 NAG . . . T 5 -22.14 33.52 -18.428 1 97.66 ? O4 NAG 602 E 1 
HETATM 12 O O5 NAG . . . T 5 -23.206 30.589 -20.356 1 99.75 ? O5 NAG 602 E 1 
HETATM 13 O O6 NAG . . . T 5 -22.941 32.054 -22.466 1 85.02 ? O6 NAG 602 E 1 
HETATM 14 O O7 NAG . . . T 5 -22.884 27.054 -17.764 1 87.63 ? O7 NAG 602 E 1 
#
_model_server_stats.io_time_ms              14 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    38 
_model_server_stats.query_time_ms           324 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           14 
#