data_5KJR
#
_model_server_result.job_id            xpfQRobP5GwYU876IMwJPg 
_model_server_result.datetime_utc      '2025-04-26 15:22:25' 
_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          5kjr 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"N","auth_seq_id":510}' 
#
_entry.id    5KJR 
#
_exptl.entry_id    5KJR 
_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    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            5KJR 
_cell.length_a            95.191 
_cell.length_b            101.944 
_cell.length_c            108.747 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5KJR 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 2' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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 
_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 E N N 
? 5 F N N 
? 5 G N N 
? 5 H N N 
? 5 I N N 
? 5 J N N 
? 5 K N N 
? 5 L N N 
? 5 M N N 
? 5 N 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 ? ? ? ? ? ? ? ? ? ? ? ? 1.947 ? 
disulf ? disulf2 A SG CYS 76 G CYS 119 1_555 A SG CYS 89 G CYS 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? 
disulf ? disulf3 A SG CYS 102 G CYS 218 1_555 A SG CYS 131 G CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? 
disulf ? disulf4 A SG CYS 112 G CYS 228 1_555 A SG CYS 123 G CYS 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.965 ? 
disulf ? disulf5 A SG CYS 180 G CYS 296 1_555 A SG CYS 199 G CYS 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.011 ? 
disulf ? disulf6 A SG CYS 245 G CYS 378 1_555 A SG CYS 306 G CYS 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? 
disulf ? disulf7 A SG CYS 252 G CYS 385 1_555 A SG CYS 279 G CYS 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.98 ? 
disulf ? disulf8 A SG CYS 262 G CYS 395 1_555 A SG CYS 271 G CYS 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
disulf ? disulf9 B SG MPT 1 N MPT 1 1_555 B SG CYS 19 N CYS 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? 
disulf ? disulf10 B SG CYS 6 N CYS 6 1_555 B SG CYS 24 N CYS 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? 
disulf ? disulf11 B SG CYS 10 N CYS 10 1_555 B SG CYS 26 N CYS 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? 
disulf ? disulf12 C SG CYS 22 H CYS 22 1_555 C SG CYS 97 H CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? 
disulf ? disulf13 C SG CYS 149 H CYS 140 1_555 C SG CYS 205 H CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.973 ? 
disulf ? disulf14 D SG CYS 27 L CYS 23 1_555 D SG CYS 95 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.972 ? 
disulf ? disulf15 D SG CYS 143 L CYS 134 1_555 D SG CYS 202 L CYS 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
covale ? covale1 A ND2 ASN 118 G ASN 234 1_555 E C1 NAG . G NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? 
covale ? covale2 A ND2 ASN 125 G ASN 241 1_555 F C1 NAG . G NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.465 ? 
covale ? covale3 A ND2 ASN 146 G ASN 262 1_555 G C1 NAG . G NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.425 ? 
covale ? covale4 A ND2 ASN 160 G ASN 276 1_555 H C1 NAG . G NAG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? 
covale ? covale5 A ND2 ASN 173 G ASN 289 1_555 I C1 NAG . G NAG 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? 
covale ? covale6 A ND2 ASN 179 G ASN 295 1_555 J C1 NAG . G NAG 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.463 ? 
covale ? covale7 A ND2 ASN 202 G ASN 334 1_555 K C1 NAG . G NAG 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? 
covale ? covale8 A ND2 ASN 253 G ASN 386 1_555 L C1 NAG . G NAG 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.422 ? 
covale ? covale9 A ND2 ASN 259 G ASN 392 1_555 M C1 NAG . G NAG 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.51 ? 
covale ? covale10 A ND2 ASN 322 G ASN 461 1_555 N C1 NAG . G NAG 510 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? 
covale ? covale11 B C MPT 1 N MPT 1 1_555 B N ASN 2 N ASN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.294 ? 
covale ? covale12 B C ALA 20 N ALA 20 1_555 B N DPR 21 N DPR 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.345 ? 
covale ? covale13 B C DPR 21 N DPR 21 1_555 B N THR 22 N THR 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? 
covale ? covale14 B C THR 22 N THR 22 1_555 B N U2X 23 N U2X 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.264 ? 
covale ? covale15 B C U2X 23 N U2X 23 1_555 B N CYS 24 N CYS 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.312 ? 
covale ? covale16 B C VAL 27 N VAL 27 1_555 B N NH2 28 N NH2 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.282 ? 
#
_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 286 n n 
C1 O1 NAG sing 287 n n 
C1 O5 NAG sing 288 n n 
C1 H1 NAG sing 289 n n 
C2 C3 NAG sing 290 n n 
C2 N2 NAG sing 291 n n 
C2 H2 NAG sing 292 n n 
C3 C4 NAG sing 293 n n 
C3 O3 NAG sing 294 n n 
C3 H3 NAG sing 295 n n 
C4 C5 NAG sing 296 n n 
C4 O4 NAG sing 297 n n 
C4 H4 NAG sing 298 n n 
C5 C6 NAG sing 299 n n 
C5 O5 NAG sing 300 n n 
C5 H5 NAG sing 301 n n 
C6 O6 NAG sing 302 n n 
C6 H61 NAG sing 303 n n 
C6 H62 NAG sing 304 n n 
C7 C8 NAG sing 305 n n 
C7 N2 NAG sing 306 n n 
C7 O7 NAG doub 307 n n 
C8 H81 NAG sing 308 n n 
C8 H82 NAG sing 309 n n 
C8 H83 NAG sing 310 n n 
N2 HN2 NAG sing 311 n n 
O1 HO1 NAG sing 312 n n 
O3 HO3 NAG sing 313 n n 
O4 HO4 NAG sing 314 n n 
O6 HO6 NAG sing 315 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                     5KJR 
_atom_sites.fract_transf_matrix[1][1]    0.010505 
_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]    0.009809 
_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]    0.009196 
_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 5 NAG G 1 501 502 NAG NAG . 
F 5 NAG G 1 502 503 NAG NAG . 
G 5 NAG G 1 503 504 NAG NAG . 
H 5 NAG G 1 504 505 NAG NAG . 
I 5 NAG G 1 505 506 NAG NAG . 
J 5 NAG G 1 506 507 NAG NAG . 
K 5 NAG G 1 507 508 NAG NAG . 
L 5 NAG G 1 508 509 NAG NAG . 
M 5 NAG G 1 509 510 NAG NAG . 
N 5 NAG G 1 510 511 NAG NAG . 
O 6 MPD L 1 301 1 MPD MPD . 
P 7 HOH G 1 601 2 HOH HOH . 
P 7 HOH G 2 602 3 HOH HOH . 
P 7 HOH G 3 603 9 HOH HOH . 
P 7 HOH G 4 604 4 HOH HOH . 
Q 7 HOH H 1 301 7 HOH HOH . 
Q 7 HOH H 2 302 8 HOH HOH . 
Q 7 HOH H 3 303 5 HOH HOH . 
R 7 HOH L 1 401 1 HOH HOH . 
R 7 HOH L 2 402 6 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 . . . N 5 30.734 16.941 81.137 1 85.03 ? C1 NAG 510 G 1 
HETATM 2 C C2 NAG . . . N 5 30.131 15.751 80.388 1 89.25 ? C2 NAG 510 G 1 
HETATM 3 C C3 NAG . . . N 5 31.219 15.068 79.598 1 87.53 ? C3 NAG 510 G 1 
HETATM 4 C C4 NAG . . . N 5 32.002 16.074 78.747 1 88.96 ? C4 NAG 510 G 1 
HETATM 5 C C5 NAG . . . N 5 31.979 17.557 79.212 1 91.91 ? C5 NAG 510 G 1 
HETATM 6 C C6 NAG . . . N 5 31.847 18.522 78.032 1 94.15 ? C6 NAG 510 G 1 
HETATM 7 C C7 NAG . . . N 5 28.208 14.489 81.27 1 86.37 ? C7 NAG 510 G 1 
HETATM 8 C C8 NAG . . . N 5 27.761 13.474 82.296 1 83.32 ? C8 NAG 510 G 1 
HETATM 9 N N2 NAG . . . N 5 29.504 14.805 81.299 1 92.33 ? N2 NAG 510 G 1 
HETATM 10 O O3 NAG . . . N 5 30.61 14.068 78.772 1 81.97 ? O3 NAG 510 G 1 
HETATM 11 O O4 NAG . . . N 5 33.374 15.665 78.711 1 87.93 ? O4 NAG 510 G 1 
HETATM 12 O O5 NAG . . . N 5 30.952 17.926 80.147 1 88.16 ? O5 NAG 510 G 1 
HETATM 13 O O6 NAG . . . N 5 30.728 19.399 78.256 1 96.51 ? O6 NAG 510 G 1 
HETATM 14 O O7 NAG . . . N 5 27.436 14.976 80.461 1 79.65 ? O7 NAG 510 G 1 
#
_model_server_stats.io_time_ms              18 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           316 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           14 
#