data_4JB9
#
_model_server_result.job_id            zB56r6e3s_hdsVWM3wumVQ 
_model_server_result.datetime_utc      '2024-11-27 08:03:59' 
_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          4jb9 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":508}' 
#
_entry.id    4JB9 
#
_exptl.entry_id    4JB9 
_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    10 
_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            4JB9 
_cell.length_a            64.244 
_cell.length_b            68.924 
_cell.length_c            224.225 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4JB9 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_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
? 4 D N N 
? 4 E N N 
? 4 F N N 
? 4 G N N 
? 4 H N N 
? 4 I N N 
? 4 J N N 
? 4 K N N 
? 4 L N N 
? 4 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 11 G CYS 54 1_555 A SG CYS 31 G CYS 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf2 A SG CYS 76 G CYS 119 1_555 A SG CYS 89 G CYS 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf3 A SG CYS 102 G CYS 218 1_555 A SG CYS 131 G CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf4 A SG CYS 112 G CYS 228 1_555 A SG CYS 123 G CYS 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf5 A SG CYS 180 G CYS 296 1_555 A SG CYS 199 G CYS 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf6 A SG CYS 245 G CYS 378 1_555 A SG CYS 306 G CYS 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? 
disulf ? disulf7 A SG CYS 252 G CYS 385 1_555 A SG CYS 279 G CYS 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf8 A SG CYS 262 G CYS 395 1_555 A SG CYS 271 G CYS 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf9 B SG CYS 22 H CYS 22 1_555 B SG CYS 103 H CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf10 B SG CYS 110 H CYS 98 1_555 B SG CYS 113 H CYS 100 1_555 ? ? ? A ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf11 B SG CYS 158 H CYS 140 1_555 B SG CYS 214 H CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf12 C SG CYS 23 L CYS 23 1_555 C SG CYS 87 L CYS 87 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
covale ? covale1 A ND2 ASN 118 G ASN 234 1_555 D C1 NAG . G NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? 
covale ? covale2 A ND2 ASN 125 G ASN 241 1_555 E C1 NAG . G NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? 
covale ? covale3 A ND2 ASN 125 G ASN 241 1_555 E C2 NAG . G NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.399 ? 
covale ? covale4 A ND2 ASN 146 G ASN 262 1_555 F C1 NAG . G NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? 
covale ? covale5 A ND2 ASN 160 G ASN 276 1_555 G C1 NAG . G NAG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? 
covale ? covale6 A ND2 ASN 173 G ASN 289 1_555 H C1 NAG . G NAG 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? 
covale ? covale7 A ND2 ASN 179 G ASN 295 1_555 I C1 NAG . G NAG 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? 
covale ? covale8 A ND2 ASN 202 G ASN 334 1_555 J C1 NAG . G NAG 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? 
covale ? covale9 A ND2 ASN 253 G ASN 386 1_555 K C1 NAG . G NAG 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? 
covale ? covale10 A ND2 ASN 259 G ASN 392 1_555 L C1 NAG . G NAG 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? 
covale ? covale11 A ND2 ASN 309 G ASN 448 1_555 M C1 NAG . G NAG 510 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                     4JB9 
_atom_sites.fract_transf_matrix[1][1]    0.015566 
_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]    0.014509 
_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]    0.00446 
_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
D 4 NAG G 1 501 501 NAG NAG . 
E 4 NAG G 1 502 502 NAG NAG . 
F 4 NAG G 1 503 503 NAG NAG . 
G 4 NAG G 1 504 504 NAG NAG . 
H 4 NAG G 1 505 505 NAG NAG . 
I 4 NAG G 1 506 506 NAG NAG . 
J 4 NAG G 1 507 507 NAG NAG . 
K 4 NAG G 1 508 508 NAG NAG . 
L 4 NAG G 1 509 509 NAG NAG . 
M 4 NAG G 1 510 510 NAG NAG . 
N 5 HOH G 1 601 1 HOH HOH . 
N 5 HOH G 2 602 2 HOH HOH . 
N 5 HOH G 3 603 3 HOH HOH . 
N 5 HOH G 4 604 4 HOH HOH . 
N 5 HOH G 5 605 5 HOH HOH . 
N 5 HOH G 6 606 6 HOH HOH . 
N 5 HOH G 7 607 7 HOH HOH . 
N 5 HOH G 8 608 8 HOH HOH . 
N 5 HOH G 9 609 33 HOH HOH . 
N 5 HOH G 10 610 38 HOH HOH . 
N 5 HOH G 11 611 39 HOH HOH . 
O 5 HOH H 1 301 9 HOH HOH . 
O 5 HOH H 2 302 10 HOH HOH . 
O 5 HOH H 3 303 11 HOH HOH . 
O 5 HOH H 4 304 12 HOH HOH . 
O 5 HOH H 5 305 13 HOH HOH . 
O 5 HOH H 6 306 14 HOH HOH . 
O 5 HOH H 7 307 15 HOH HOH . 
O 5 HOH H 8 308 16 HOH HOH . 
O 5 HOH H 9 309 17 HOH HOH . 
O 5 HOH H 10 310 18 HOH HOH . 
O 5 HOH H 11 311 19 HOH HOH . 
O 5 HOH H 12 312 20 HOH HOH . 
O 5 HOH H 13 313 21 HOH HOH . 
O 5 HOH H 14 314 32 HOH HOH . 
O 5 HOH H 15 315 34 HOH HOH . 
O 5 HOH H 16 316 37 HOH HOH . 
O 5 HOH H 17 317 40 HOH HOH . 
P 5 HOH L 1 301 22 HOH HOH . 
P 5 HOH L 2 302 23 HOH HOH . 
P 5 HOH L 3 303 24 HOH HOH . 
P 5 HOH L 4 304 25 HOH HOH . 
P 5 HOH L 5 305 26 HOH HOH . 
P 5 HOH L 6 306 27 HOH HOH . 
P 5 HOH L 7 307 28 HOH HOH . 
P 5 HOH L 8 308 29 HOH HOH . 
P 5 HOH L 9 309 30 HOH HOH . 
P 5 HOH L 10 310 31 HOH HOH . 
P 5 HOH L 11 311 35 HOH HOH . 
P 5 HOH L 12 312 36 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 . . . K 4 9.553 -33.662 -52.42 1 80.03 ? C1 NAG 508 G 1 
HETATM 2 C C2 NAG . . . K 4 8.182 -34.06 -51.864 1 93.4 ? C2 NAG 508 G 1 
HETATM 3 C C3 NAG . . . K 4 8.344 -35.113 -50.762 1 91.26 ? C3 NAG 508 G 1 
HETATM 4 C C4 NAG . . . K 4 9.19 -36.278 -51.247 1 89.92 ? C4 NAG 508 G 1 
HETATM 5 C C5 NAG . . . K 4 10.519 -35.757 -51.777 1 98.01 ? C5 NAG 508 G 1 
HETATM 6 C C6 NAG . . . K 4 11.409 -36.844 -52.329 1 90.56 ? C6 NAG 508 G 1 
HETATM 7 C C7 NAG . . . K 4 6.277 -32.513 -51.842 1 97.75 ? C7 NAG 508 G 1 
HETATM 8 C C8 NAG . . . K 4 5.698 -33.354 -52.942 1 108.34 ? C8 NAG 508 G 1 
HETATM 9 N N2 NAG . . . K 4 7.466 -32.907 -51.368 1 88.49 ? N2 NAG 508 G 1 
HETATM 10 O O3 NAG . . . K 4 7.06 -35.58 -50.361 1 96.74 ? O3 NAG 508 G 1 
HETATM 11 O O4 NAG . . . K 4 9.44 -37.171 -50.167 1 85.21 ? O4 NAG 508 G 1 
HETATM 12 O O5 NAG . . . K 4 10.276 -34.828 -52.847 1 97.96 ? O5 NAG 508 G 1 
HETATM 13 O O6 NAG . . . K 4 11.465 -36.794 -53.747 1 81.02 ? O6 NAG 508 G 1 
HETATM 14 O O7 NAG . . . K 4 5.698 -31.526 -51.404 1 93.99 ? O7 NAG 508 G 1 
#
_model_server_stats.io_time_ms              19 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           319 
_model_server_stats.encode_time_ms          22 
_model_server_stats.element_count           14 
#