data_4I54
#
_model_server_result.job_id            N235bSlfHnSZ9QK71YgV6Q 
_model_server_result.datetime_utc      '2024-12-01 00:23:11' 
_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          4i54 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":508}' 
#
_entry.id    4I54 
#
_exptl.entry_id    4I54 
_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    16 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          90.89 
_cell.angle_gamma         90 
_cell.entry_id            4I54 
_cell.length_a            65.324 
_cell.length_b            68.775 
_cell.length_c            94.443 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4I54 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
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 monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 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,C,D,E,F,G,H,I,J,K,L,W 1 1 
B,M,N,O,P,Q,R,S,T,U,V,X 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
? 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 N N N 
? 4 O N N 
? 4 P N N 
? 4 Q N N 
? 4 R N N 
? 4 S N N 
? 4 T N N 
? 4 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 11 A CYS 54 1_555 A SG CYS 31 A CYS 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? 
disulf ? disulf2 A SG CYS 76 A CYS 119 1_555 A SG CYS 89 A CYS 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
disulf ? disulf3 A SG CYS 102 A CYS 218 1_555 A SG CYS 131 A CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? 
disulf ? disulf4 A SG CYS 112 A CYS 228 1_555 A SG CYS 123 A CYS 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? 
disulf ? disulf5 A SG CYS 180 A CYS 296 1_555 A SG CYS 199 A CYS 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf6 A SG CYS 245 A CYS 378 1_555 A SG CYS 306 A CYS 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
disulf ? disulf7 A SG CYS 252 A CYS 385 1_555 A SG CYS 279 A CYS 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? 
disulf ? disulf8 B SG CYS 11 B CYS 54 1_555 B SG CYS 31 B CYS 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
disulf ? disulf9 B SG CYS 76 B CYS 119 1_555 B SG CYS 89 B CYS 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf10 B SG CYS 102 B CYS 218 1_555 B SG CYS 131 B CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? 
disulf ? disulf11 B SG CYS 112 B CYS 228 1_555 B SG CYS 123 B CYS 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf12 B SG CYS 180 B CYS 296 1_555 B SG CYS 199 B CYS 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf13 B SG CYS 245 B CYS 378 1_555 B SG CYS 306 B CYS 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf14 B SG CYS 252 B CYS 385 1_555 B SG CYS 279 B CYS 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
covale ? covale1 A ND2 ASN 118 A ASN 234 1_555 E C1 NAG . A NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? 
covale ? covale2 A ND2 ASN 146 A ASN 262 1_555 F C1 NAG . A NAG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? 
covale ? covale3 A ND2 ASN 160 A ASN 276 1_555 G C1 NAG . A NAG 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? 
covale ? covale4 A ND2 ASN 173 A ASN 289 1_555 H C1 NAG . A NAG 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.521 ? 
covale ? covale5 A ND2 ASN 179 A ASN 295 1_555 I C1 NAG . A NAG 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? 
covale ? covale6 A ND2 ASN 202 A ASN 334 1_555 J C1 NAG . A NAG 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? 
covale ? covale7 A ND2 ASN 223 A ASN 355 1_555 K C1 NAG . A NAG 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.557 ? 
covale ? covale8 A ND2 ASN 253 A ASN 386 1_555 L C1 NAG . A NAG 510 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? 
covale ? covale9 B ND2 ASN 118 B ASN 234 1_555 N C1 NAG . B NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? 
covale ? covale10 B ND2 ASN 125 B ASN 241 1_555 T C1 NAG . B NAG 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? 
covale ? covale11 B ND2 ASN 146 B ASN 262 1_555 O C1 NAG . B NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? 
covale ? covale12 B ND2 ASN 160 B ASN 276 1_555 P C1 NAG . B NAG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? 
covale ? covale13 B ND2 ASN 173 B ASN 289 1_555 Q C1 NAG . B NAG 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? 
covale ? covale14 B ND2 ASN 179 B ASN 295 1_555 R C1 NAG . B NAG 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? 
covale ? covale15 B ND2 ASN 253 B ASN 386 1_555 S C1 NAG . B NAG 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? 
covale ? covale16 B ND2 ASN 309 B ASN 448 1_555 U C1 NAG . B NAG 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? 
#
_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 320 n n 
C1 O1 NAG sing 321 n n 
C1 O5 NAG sing 322 n n 
C1 H1 NAG sing 323 n n 
C2 C3 NAG sing 324 n n 
C2 N2 NAG sing 325 n n 
C2 H2 NAG sing 326 n n 
C3 C4 NAG sing 327 n n 
C3 O3 NAG sing 328 n n 
C3 H3 NAG sing 329 n n 
C4 C5 NAG sing 330 n n 
C4 O4 NAG sing 331 n n 
C4 H4 NAG sing 332 n n 
C5 C6 NAG sing 333 n n 
C5 O5 NAG sing 334 n n 
C5 H5 NAG sing 335 n n 
C6 O6 NAG sing 336 n n 
C6 H61 NAG sing 337 n n 
C6 H62 NAG sing 338 n n 
C7 C8 NAG sing 339 n n 
C7 N2 NAG sing 340 n n 
C7 O7 NAG doub 341 n n 
C8 H81 NAG sing 342 n n 
C8 H82 NAG sing 343 n n 
C8 H83 NAG sing 344 n n 
N2 HN2 NAG sing 345 n n 
O1 HO1 NAG sing 346 n n 
O3 HO3 NAG sing 347 n n 
O4 HO4 NAG sing 348 n n 
O6 HO6 NAG sing 349 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                     4I54 
_atom_sites.fract_transf_matrix[1][1]    0.015308 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000238 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.01454 
_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]    0.01059 
_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
C 2 1C1 A 1 501 1 1C1 D1C . 
D 3 EPE A 1 502 500 EPE EPE . 
E 4 NAG A 1 503 501 NAG NAG . 
F 4 NAG A 1 504 502 NAG NAG . 
G 4 NAG A 1 505 503 NAG NAG . 
H 4 NAG A 1 506 506 NAG NAG . 
I 4 NAG A 1 507 505 NAG NAG . 
J 4 NAG A 1 508 506 NAG NAG . 
K 4 NAG A 1 509 509 NAG NAG . 
L 4 NAG A 1 510 508 NAG NAG . 
M 2 1C1 B 1 501 1 1C1 D1C . 
N 4 NAG B 1 502 502 NAG NAG . 
O 4 NAG B 1 503 502 NAG NAG . 
P 4 NAG B 1 504 503 NAG NAG . 
Q 4 NAG B 1 505 504 NAG NAG . 
R 4 NAG B 1 506 505 NAG NAG . 
S 4 NAG B 1 507 506 NAG NAG . 
T 4 NAG B 1 508 507 NAG NAG . 
U 4 NAG B 1 509 508 NAG NAG . 
V 3 EPE B 1 510 509 EPE EPE . 
W 5 HOH A 1 601 1 HOH HOH . 
W 5 HOH A 2 602 2 HOH HOH . 
W 5 HOH A 3 603 3 HOH HOH . 
W 5 HOH A 4 604 5 HOH HOH . 
W 5 HOH A 5 605 6 HOH HOH . 
W 5 HOH A 6 606 7 HOH HOH . 
W 5 HOH A 7 607 14 HOH HOH . 
W 5 HOH A 8 608 15 HOH HOH . 
W 5 HOH A 9 609 16 HOH HOH . 
W 5 HOH A 10 610 17 HOH HOH . 
W 5 HOH A 11 611 18 HOH HOH . 
W 5 HOH A 12 612 19 HOH HOH . 
W 5 HOH A 13 613 20 HOH HOH . 
W 5 HOH A 14 614 23 HOH HOH . 
W 5 HOH A 15 615 24 HOH HOH . 
W 5 HOH A 16 616 25 HOH HOH . 
W 5 HOH A 17 617 26 HOH HOH . 
X 5 HOH B 1 601 4 HOH HOH . 
X 5 HOH B 2 602 8 HOH HOH . 
X 5 HOH B 3 603 9 HOH HOH . 
X 5 HOH B 4 604 10 HOH HOH . 
X 5 HOH B 5 605 11 HOH HOH . 
X 5 HOH B 6 606 12 HOH HOH . 
X 5 HOH B 7 607 13 HOH HOH . 
X 5 HOH B 8 608 21 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 4 -31.3 -22.864 4.969 1 68.22 ? C1 NAG 508 A 1 
HETATM 2 C C2 NAG . . . J 4 -31.88 -22.389 6.315 1 75.11 ? C2 NAG 508 A 1 
HETATM 3 C C3 NAG . . . J 4 -33.405 -22.497 6.454 1 69.82 ? C3 NAG 508 A 1 
HETATM 4 C C4 NAG . . . J 4 -34.094 -22.055 5.176 1 71.19 ? C4 NAG 508 A 1 
HETATM 5 C C5 NAG . . . J 4 -33.51 -22.845 4.023 1 74.4 ? C5 NAG 508 A 1 
HETATM 6 C C6 NAG . . . J 4 -34.199 -22.429 2.738 1 78.85 ? C6 NAG 508 A 1 
HETATM 7 C C7 NAG . . . J 4 -30.542 -22.378 8.32 1 76.51 ? C7 NAG 508 A 1 
HETATM 8 C C8 NAG . . . J 4 -29.116 -22.064 7.956 1 83.85 ? C8 NAG 508 A 1 
HETATM 9 N N2 NAG . . . J 4 -31.24 -23.072 7.427 1 75.07 ? N2 NAG 508 A 1 
HETATM 10 O O3 NAG . . . J 4 -33.841 -21.661 7.507 1 62.44 ? O3 NAG 508 A 1 
HETATM 11 O O4 NAG . . . J 4 -35.491 -22.245 5.241 1 71.46 ? O4 NAG 508 A 1 
HETATM 12 O O5 NAG . . . J 4 -32.145 -22.511 3.892 1 72.76 ? O5 NAG 508 A 1 
HETATM 13 O O6 NAG . . . J 4 -33.54 -21.276 2.264 1 81.39 ? O6 NAG 508 A 1 
HETATM 14 O O7 NAG . . . J 4 -31.021 -21.99 9.386 1 74.11 ? O7 NAG 508 A 1 
#
_model_server_stats.io_time_ms              15 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           292 
_model_server_stats.encode_time_ms          11 
_model_server_stats.element_count           14 
#