data_3PQR
#
_model_server_result.job_id            n5mn-YF7qWNxLH3EVnJAAQ 
_model_server_result.datetime_utc      '2024-11-13 01:31:26' 
_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          3pqr 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":501}' 
#
_entry.id    3PQR 
#
_exptl.entry_id    3PQR 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              221.208 
_entity.id                          6 
_entity.src_method                  man 
_entity.type                        non-polymer 
_entity.pdbx_description            2-acetamido-2-deoxy-beta-D-glucopyranose 
_entity.pdbx_number_of_molecules    1 
_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         120 
_cell.entry_id            3PQR 
_cell.length_a            241.55 
_cell.length_b            241.55 
_cell.length_c            109.87 
_cell.Z_PDB               18 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3PQR 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        155 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'H 3 2' 
#
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 dimeric 2 author_and_software_defined_assembly 1 
PISA tetrameric 4 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,B,C,D,E,F,G,H,I,J,K,L,M,N 1 1 
A,B,C,D,E,F,G,H,I,J,K,L,M,N 2 1,2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 5_556 x-y,-y,-z+1 1 0 0 0 -1 0 0 0 -1 0 0 109.87 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      6 
_struct_asym.id                             F 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
loop_
_pdbx_entity_branch.entity_id
_pdbx_entity_branch.type
3 oligosaccharide 
4 oligosaccharide 
#
loop_
_pdbx_entity_branch_link.link_id
_pdbx_entity_branch_link.details
_pdbx_entity_branch_link.entity_id
_pdbx_entity_branch_link.entity_branch_list_num_1
_pdbx_entity_branch_link.entity_branch_list_num_2
_pdbx_entity_branch_link.comp_id_1
_pdbx_entity_branch_link.comp_id_2
_pdbx_entity_branch_link.atom_id_1
_pdbx_entity_branch_link.leaving_atom_id_1
_pdbx_entity_branch_link.atom_stereo_config_1
_pdbx_entity_branch_link.atom_id_2
_pdbx_entity_branch_link.leaving_atom_id_2
_pdbx_entity_branch_link.atom_stereo_config_2
_pdbx_entity_branch_link.value_order
1 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 
2 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing 
3 ? 3 4 3 MAN BMA C1 O1 . O3 HO3 . sing 
4 ? 4 1 2 GLC GLC C1 O1 . O1 HO1 . sing 
#
loop_
_pdbx_branch_scheme.entity_id
_pdbx_branch_scheme.hetero
_pdbx_branch_scheme.asym_id
_pdbx_branch_scheme.mon_id
_pdbx_branch_scheme.num
_pdbx_branch_scheme.pdb_asym_id
_pdbx_branch_scheme.pdb_seq_num
_pdbx_branch_scheme.pdb_mon_id
_pdbx_branch_scheme.auth_asym_id
_pdbx_branch_scheme.auth_seq_num
_pdbx_branch_scheme.auth_mon_id
3 n C NAG 1 C 1 NAG A 402 NAG 
3 n C NAG 2 C 2 NAG A 403 NAG 
3 n C BMA 3 C 3 BMA A 404 BMA 
3 n C MAN 4 C 4 MAN A 405 MAN 
4 n D GLC 1 D 1 GLC A 1001 TRE 
4 n D GLC 2 D 2 GLC A 1001 TRE 
#
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 110 A CYS 110 1_555 A SG CYS 187 A CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? 
covale ? covale1 A ND2 ASN 2 A ASN 2 1_555 F C1 NAG . A NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? 
covale ? covale2 A ND2 ASN 15 A ASN 15 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? 
covale ? covale3 A NZ LYS 296 A LYS 296 1_555 E C15 RET . A RET 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? 
covale ? covale4 A SG CYS 323 A CYS 323 1_555 I C1 PLM . A PLM 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.833 ? 
covale ? covale5 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.424 ? 
covale ? covale6 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? 
covale ? covale7 C O3 BMA . C BMA 3 1_555 C C1 MAN . C MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? 
covale ? covale8 D C1 GLC . D GLC 1 1_555 D O1 GLC . D GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 sing 
#
_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 363 n n 
C1 O1 NAG sing 364 n n 
C1 O5 NAG sing 365 n n 
C1 H1 NAG sing 366 n n 
C2 C3 NAG sing 367 n n 
C2 N2 NAG sing 368 n n 
C2 H2 NAG sing 369 n n 
C3 C4 NAG sing 370 n n 
C3 O3 NAG sing 371 n n 
C3 H3 NAG sing 372 n n 
C4 C5 NAG sing 373 n n 
C4 O4 NAG sing 374 n n 
C4 H4 NAG sing 375 n n 
C5 C6 NAG sing 376 n n 
C5 O5 NAG sing 377 n n 
C5 H5 NAG sing 378 n n 
C6 O6 NAG sing 379 n n 
C6 H61 NAG sing 380 n n 
C6 H62 NAG sing 381 n n 
C7 C8 NAG sing 382 n n 
C7 N2 NAG sing 383 n n 
C7 O7 NAG doub 384 n n 
C8 H81 NAG sing 385 n n 
C8 H82 NAG sing 386 n n 
C8 H83 NAG sing 387 n n 
N2 HN2 NAG sing 388 n n 
O1 HO1 NAG sing 389 n n 
O3 HO3 NAG sing 390 n n 
O4 HO4 NAG sing 391 n n 
O6 HO6 NAG sing 392 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                     3PQR 
_atom_sites.fract_transf_matrix[1][1]    0.00414 
_atom_sites.fract_transf_matrix[1][2]    0.00239 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.00478 
_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]    0.009102 
_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 RET A 1 401 401 RET RET . 
F 6 NAG A 1 501 501 NAG NAG . 
G 7 BOG A 1 601 601 BOG BOG . 
H 7 BOG A 1 602 602 BOG BOG . 
I 8 PLM A 1 701 701 PLM PLM . 
J 9 SO4 A 1 801 801 SO4 SO4 . 
K 10 ACT A 1 901 901 ACT ACT . 
L 10 ACT A 1 902 902 ACT ACT . 
M 11 HOH A 1 349 1 HOH HOH . 
M 11 HOH A 2 350 2 HOH HOH . 
M 11 HOH A 3 351 3 HOH HOH . 
M 11 HOH A 4 352 6 HOH HOH . 
M 11 HOH A 5 353 7 HOH HOH . 
M 11 HOH A 6 354 8 HOH HOH . 
M 11 HOH A 7 355 9 HOH HOH . 
M 11 HOH A 8 356 10 HOH HOH . 
M 11 HOH A 9 357 11 HOH HOH . 
M 11 HOH A 10 358 12 HOH HOH . 
M 11 HOH A 11 359 13 HOH HOH . 
M 11 HOH A 12 360 14 HOH HOH . 
M 11 HOH A 13 361 15 HOH HOH . 
M 11 HOH A 14 362 16 HOH HOH . 
M 11 HOH A 15 363 17 HOH HOH . 
M 11 HOH A 16 364 18 HOH HOH . 
M 11 HOH A 17 365 19 HOH HOH . 
M 11 HOH A 18 366 20 HOH HOH . 
M 11 HOH A 19 367 22 HOH HOH . 
N 11 HOH B 1 4 4 HOH HOH . 
N 11 HOH B 2 5 5 HOH HOH . 
N 11 HOH B 3 21 21 HOH HOH . 
N 11 HOH B 4 23 23 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 6 -64.129 -25.411 42.561 1 114.21 ? C1 NAG 501 A 1 
HETATM 2 C C2 NAG . . . F 6 -63.525 -26.605 41.788 1 114.09 ? C2 NAG 501 A 1 
HETATM 3 C C3 NAG . . . F 6 -63.417 -27.857 42.66 1 117.93 ? C3 NAG 501 A 1 
HETATM 4 C C4 NAG . . . F 6 -63.049 -27.468 44.092 1 123.39 ? C4 NAG 501 A 1 
HETATM 5 C C5 NAG . . . F 6 -64.203 -26.687 44.733 1 124.02 ? C5 NAG 501 A 1 
HETATM 6 C C6 NAG . . . F 6 -63.792 -26.345 46.181 1 122.62 ? C6 NAG 501 A 1 
HETATM 7 C C7 NAG . . . F 6 -64.075 -26.545 39.371 1 113.66 ? C7 NAG 501 A 1 
HETATM 8 C C8 NAG . . . F 6 -65.144 -26.927 38.339 1 109.59 ? C8 NAG 501 A 1 
HETATM 9 N N2 NAG . . . F 6 -64.382 -26.887 40.624 1 114.98 ? N2 NAG 501 A 1 
HETATM 10 O O3 NAG . . . F 6 -62.425 -28.734 42.127 1 118.96 ? O3 NAG 501 A 1 
HETATM 11 O O4 NAG . . . F 6 -62.756 -28.634 44.871 1 126.36 ? O4 NAG 501 A 1 
HETATM 12 O O5 NAG . . . F 6 -64.556 -25.482 43.973 1 119.78 ? O5 NAG 501 A 1 
HETATM 13 O O6 NAG . . . F 6 -64.945 -26.299 47.025 1 121.5 ? O6 NAG 501 A 1 
HETATM 14 O O7 NAG . . . F 6 -63.033 -25.976 39.033 1 109.48 ? O7 NAG 501 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           324 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           14 
#