data_7JPH
#
_model_server_result.job_id            2Tgjmu0RhJICOzIeggtC6A 
_model_server_result.datetime_utc      '2024-11-24 19:46:36' 
_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          7jph 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":501}' 
#
_entry.id    7JPH 
#
_exptl.entry_id    7JPH 
_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    2 
_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            7JPH 
_cell.length_a            114.061 
_cell.length_b            114.061 
_cell.length_c            136.216 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7JPH 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        150 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 3 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2,3 
#
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' 2_545 -y,x-y-1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 57.0305 -98.779724 0 
3 'crystal symmetry operation' 3_655 -x+y+1,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 114.061 0 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 
#
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 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 
3 ? 4 3 2 BMA NAG C1 O1 . O4 HO4 . sing 
4 ? 4 4 3 MAN BMA C1 O1 . O6 HO6 . sing 
5 ? 4 5 4 MAN MAN C1 O1 . O3 HO3 . sing 
6 ? 4 6 3 MAN BMA C1 O1 . O3 HO3 . 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 E 1 NAG A 485 NAG 
3 n C NAG 2 E 2 NAG A 502 NAG 
4 n D NAG 1 C 1 NAG B 640 NAG 
4 n D NAG 2 C 2 NAG B 641 NAG 
4 n D BMA 3 C 3 BMA B 642 BMA 
4 n D MAN 4 C 4 MAN B 643 MAN 
4 n D MAN 5 C 5 MAN B 645 MAN 
4 n D MAN 6 C 6 MAN B 646 MAN 
#
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 21 A CYS 53 1_555 B SG CYS 108 B CYS 609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? 
disulf ? disulf2 A SG CYS 76 A CYS 108 1_555 A SG CYS 103 A CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? 
disulf ? disulf3 A SG CYS 89 A CYS 121 1_555 A SG CYS 115 A CYS 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? 
disulf ? disulf4 B SG CYS 10 B CYS 511 1_555 B SG CYS 55 B CYS 556 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? 
disulf ? disulf5 B SG CYS 100 B CYS 601 1_555 B SG CYS 107 B CYS 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? 
covale ? covale1 A ND2 ASN 206 A ASN 238 1_555 E C1 NAG . A NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? 
covale ? covale2 A ND2 ASN 225 A ASN 257 1_555 C C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? 
covale ? covale3 B ND2 ASN 62 B ASN 563 1_555 D C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? 
covale ? covale4 B ND2 ASN 117 B ASN 618 1_555 F C1 NAG . B NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.463 ? 
covale ? covale5 C O4 NAG . E NAG 1 1_555 C C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? 
covale ? covale6 D O4 NAG . C NAG 1 1_555 D C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.468 ? 
covale ? covale7 D O4 NAG . C NAG 2 1_555 D C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.484 ? 
covale ? covale8 D O6 BMA . C BMA 3 1_555 D C1 MAN . C MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.461 ? 
covale ? covale9 D O3 BMA . C BMA 3 1_555 D C1 MAN . C MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? 
covale ? covale10 D O3 MAN . C MAN 4 1_555 D C1 MAN . C MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.47 ? 
#
_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 283 n n 
C1 O1 NAG sing 284 n n 
C1 O5 NAG sing 285 n n 
C1 H1 NAG sing 286 n n 
C2 C3 NAG sing 287 n n 
C2 N2 NAG sing 288 n n 
C2 H2 NAG sing 289 n n 
C3 C4 NAG sing 290 n n 
C3 O3 NAG sing 291 n n 
C3 H3 NAG sing 292 n n 
C4 C5 NAG sing 293 n n 
C4 O4 NAG sing 294 n n 
C4 H4 NAG sing 295 n n 
C5 C6 NAG sing 296 n n 
C5 O5 NAG sing 297 n n 
C5 H5 NAG sing 298 n n 
C6 O6 NAG sing 299 n n 
C6 H61 NAG sing 300 n n 
C6 H62 NAG sing 301 n n 
C7 C8 NAG sing 302 n n 
C7 N2 NAG sing 303 n n 
C7 O7 NAG doub 304 n n 
C8 H81 NAG sing 305 n n 
C8 H82 NAG sing 306 n n 
C8 H83 NAG sing 307 n n 
N2 HN2 NAG sing 308 n n 
O1 HO1 NAG sing 309 n n 
O3 HO3 NAG sing 310 n n 
O4 HO4 NAG sing 311 n n 
O6 HO6 NAG sing 312 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                     7JPH 
_atom_sites.fract_transf_matrix[1][1]    0.008767 
_atom_sites.fract_transf_matrix[1][2]    0.005062 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.010124 
_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]    0.007341 
_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 A 1 501 479 NAG NAG . 
F 5 NAG B 1 701 803 NAG NAG . 
G 6 PO4 B 1 702 801 PO4 PO4 . 
#
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 . . . E 5 43.185 -6.543 18.018 1 211.22 ? C1 NAG 501 A 1 
HETATM 2 C C2 NAG . . . E 5 42.136 -6.605 19.137 1 221.4 ? C2 NAG 501 A 1 
HETATM 3 C C3 NAG . . . E 5 41.525 -8.012 19.192 1 214.96 ? C3 NAG 501 A 1 
HETATM 4 C C4 NAG . . . E 5 41.079 -8.501 17.809 1 201.95 ? C4 NAG 501 A 1 
HETATM 5 C C5 NAG . . . E 5 42.233 -8.402 16.813 1 189.83 ? C5 NAG 501 A 1 
HETATM 6 C C6 NAG . . . E 5 41.817 -8.919 15.438 1 175.62 ? C6 NAG 501 A 1 
HETATM 7 C C7 NAG . . . E 5 42.585 -5.025 21.079 1 195.42 ? C7 NAG 501 A 1 
HETATM 8 C C8 NAG . . . E 5 43.253 -4.919 22.422 1 170.02 ? C8 NAG 501 A 1 
HETATM 9 N N2 NAG . . . E 5 42.72 -6.215 20.44 1 222.89 ? N2 NAG 501 A 1 
HETATM 10 O O3 NAG . . . E 5 40.413 -8.044 20.097 1 217.48 ? O3 NAG 501 A 1 
HETATM 11 O O4 NAG . . . E 5 40.636 -9.866 17.884 1 191.57 ? O4 NAG 501 A 1 
HETATM 12 O O5 NAG . . . E 5 42.686 -7.037 16.752 1 196.9 ? O5 NAG 501 A 1 
HETATM 13 O O6 NAG . . . E 5 42.733 -8.425 14.453 1 164.16 ? O6 NAG 501 A 1 
HETATM 14 O O7 NAG . . . E 5 41.968 -4.064 20.647 1 195.59 ? O7 NAG 501 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           285 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           14 
#