data_3INB
#
_model_server_result.job_id            CdDQp9mc_IIKlMmdg35QiA 
_model_server_result.datetime_utc      '2024-11-22 08:01:35' 
_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          3inb 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":1215}' 
#
_entry.id    3INB 
#
_exptl.entry_id    3INB 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              221.208 
_entity.id                          3 
_entity.src_method                  man 
_entity.type                        non-polymer 
_entity.pdbx_description            2-acetamido-2-deoxy-beta-D-glucopyranose 
_entity.pdbx_number_of_molecules    6 
_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            3INB 
_cell.length_a            81.365 
_cell.length_b            105.833 
_cell.length_c            208.71 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3INB 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        17 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 2 2 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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,L,M,N,O,P 
_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
? 3 E N N 
? 3 F N N 
? 3 H N N 
? 3 I N N 
? 3 L N N 
? 3 M 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 136 A CYS 287 1_555 A SG CYS 149 A CYS 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf2 A SG CYS 230 A CYS 381 1_555 A SG CYS 343 A CYS 494 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? 
disulf ? disulf3 A SG CYS 235 A CYS 386 1_555 A SG CYS 243 A CYS 394 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
disulf ? disulf4 A SG CYS 419 A CYS 570 1_555 A SG CYS 428 A CYS 579 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? 
disulf ? disulf5 B SG CYS 37 B CYS 188 1_555 B SG CYS 455 B CYS 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? 
disulf ? disulf6 B SG CYS 136 B CYS 287 1_555 B SG CYS 149 B CYS 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf7 B SG CYS 230 B CYS 381 1_555 B SG CYS 343 B CYS 494 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
disulf ? disulf8 B SG CYS 235 B CYS 386 1_555 B SG CYS 243 B CYS 394 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
disulf ? disulf9 B SG CYS 419 B CYS 570 1_555 B SG CYS 428 B CYS 579 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
disulf ? disulf10 C SG CYS 1 C CYS 1 1_555 C SG CYS 46 C CYS 46 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? 
disulf ? disulf11 C SG CYS 30 C CYS 30 1_555 C SG CYS 60 C CYS 60 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? 
disulf ? disulf12 C SG CYS 65 C CYS 65 1_555 C SG CYS 107 C CYS 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? 
disulf ? disulf13 C SG CYS 93 C CYS 93 1_555 C SG CYS 123 C CYS 123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? 
disulf ? disulf14 D SG CYS 1 D CYS 1 1_555 D SG CYS 46 D CYS 46 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf15 D SG CYS 30 D CYS 30 1_555 D SG CYS 60 D CYS 60 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? 
disulf ? disulf16 D SG CYS 65 D CYS 65 1_555 D SG CYS 107 D CYS 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf17 D SG CYS 93 D CYS 93 1_555 D SG CYS 123 D CYS 123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? 
covale ? covale1 A ND2 ASN 49 A ASN 200 1_555 E C1 NAG . A NAG 1200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? 
covale ? covale2 A ND2 ASN 64 A ASN 215 1_555 F C1 NAG . A NAG 1215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? 
covale ? covale3 B ND2 ASN 49 B ASN 200 1_555 H C1 NAG . B NAG 1200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? 
covale ? covale4 B ND2 ASN 64 B ASN 215 1_555 I C1 NAG . B NAG 1215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? 
covale ? covale5 C ND2 ASN 80 C ASN 80 1_555 L C1 NAG . C NAG 1080 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? 
covale ? covale6 D ND2 ASN 80 D ASN 80 1_555 M C1 NAG . D NAG 1080 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? 
#
_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                     3INB 
_atom_sites.fract_transf_matrix[1][1]    0.01229 
_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]    0.009449 
_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]    0.004791 
_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 NAG A 1 1200 1200 NAG NAG . 
F 3 NAG A 1 1215 1215 NAG NAG . 
G 4 SO4 A 1 3 3 SO4 SO4 . 
H 3 NAG B 1 1200 1200 NAG NAG . 
I 3 NAG B 1 1215 1215 NAG NAG . 
J 4 SO4 B 1 1 1 SO4 SO4 . 
K 4 SO4 B 1 2 2 SO4 SO4 . 
L 3 NAG C 1 1080 1080 NAG NAG . 
M 3 NAG D 1 1080 1080 NAG NAG . 
N 5 HOH A 1 1 1 HOH HOH . 
N 5 HOH A 2 4 4 HOH HOH . 
N 5 HOH A 3 6 6 HOH HOH . 
N 5 HOH A 4 618 3 HOH HOH . 
O 5 HOH B 1 5 5 HOH HOH . 
O 5 HOH B 2 7 7 HOH HOH . 
O 5 HOH B 3 8 8 HOH HOH . 
P 5 HOH C 1 127 2 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 3 -24.883 16.962 22.456 1 220.68 ? C1 NAG 1215 A 1 
HETATM 2 C C2 NAG . . . F 3 -26.058 16.205 21.831 1 216.25 ? C2 NAG 1215 A 1 
HETATM 3 C C3 NAG . . . F 3 -27.411 16.866 22.103 1 218.79 ? C3 NAG 1215 A 1 
HETATM 4 C C4 NAG . . . F 3 -27.537 17.395 23.533 1 212.3 ? C4 NAG 1215 A 1 
HETATM 5 C C5 NAG . . . F 3 -26.278 18.122 23.988 1 208.21 ? C5 NAG 1215 A 1 
HETATM 6 C C6 NAG . . . F 3 -26.398 18.473 25.464 1 204.49 ? C6 NAG 1215 A 1 
HETATM 7 C C7 NAG . . . F 3 -25.581 14.902 19.809 1 219.19 ? C7 NAG 1215 A 1 
HETATM 8 C C8 NAG . . . F 3 -24.939 14.941 18.452 1 224.44 ? C8 NAG 1215 A 1 
HETATM 9 N N2 NAG . . . F 3 -25.849 16.074 20.395 1 208.03 ? N2 NAG 1215 A 1 
HETATM 10 O O3 NAG . . . F 3 -28.426 15.911 21.863 1 209.11 ? O3 NAG 1215 A 1 
HETATM 11 O O4 NAG . . . F 3 -28.626 18.294 23.644 1 184.91 ? O4 NAG 1215 A 1 
HETATM 12 O O5 NAG . . . F 3 -25.131 17.319 23.804 1 200.51 ? O5 NAG 1215 A 1 
HETATM 13 O O6 NAG . . . F 3 -26.552 17.275 26.197 1 191.63 ? O6 NAG 1215 A 1 
HETATM 14 O O7 NAG . . . F 3 -25.835 13.814 20.327 1 219.89 ? O7 NAG 1215 A 1 
#
_model_server_stats.io_time_ms              22 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    15 
_model_server_stats.query_time_ms           294 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           14 
#