data_8WMK
#
_model_server_result.job_id            L6e8t2k0FAzMnSuBpoXltA 
_model_server_result.datetime_utc      '2024-11-13 14:24:51' 
_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          8wmk 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":303}' 
#
_entry.id    8WMK 
#
_exptl.entry_id    8WMK 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              180.156 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            alpha-D-mannopyranose 
_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          128.14 
_cell.angle_gamma         90 
_cell.entry_id            8WMK 
_cell.length_a            117.715 
_cell.length_b            113.841 
_cell.length_c            83.206 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8WMK 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    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' 2_556 -x,y,-z+1 -1 0 0 0 1 0 0 0 -1 -51.386787 0 65.441857 
#
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 G 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
covale ? covale1 C C3T WU0 . A WU0 301 1_555 D N ETA . A ETA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? 
covale ? covale2 C C3U WU0 . A WU0 301 1_555 F N ETA . A ETA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale3 D O ETA . A ETA 302 1_555 E C1 MAN . A MAN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? 
covale ? covale4 F O ETA . A ETA 304 1_555 G C1 MAN . A MAN 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? 
metalc ? metalc1 A OE2 GLU 8 A GLU 8 1_555 H MN MN . A MN 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.232 ? 
metalc ? metalc2 A OD2 ASP 10 A ASP 10 1_555 H MN MN . A MN 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? 
metalc ? metalc3 A OD1 ASP 10 A ASP 10 1_555 I CA CA . A CA 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? 
metalc ? metalc4 A OD2 ASP 10 A ASP 10 1_555 I CA CA . A CA 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.448 ? 
metalc ? metalc5 A O TYR 12 A TYR 12 1_555 I CA CA . A CA 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.454 ? 
metalc ? metalc6 A OD1 ASN 14 A ASN 14 1_555 I CA CA . A CA 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.463 ? 
metalc ? metalc7 A OD1 ASP 19 A ASP 19 1_555 H MN MN . A MN 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.214 ? 
metalc ? metalc8 A OD2 ASP 19 A ASP 19 1_555 I CA CA . A CA 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.231 ? 
metalc ? metalc9 A NE2 HIS 24 A HIS 24 1_555 H MN MN . A MN 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.205 ? 
metalc ? metalc10 H MN MN . A MN 306 1_555 L O HOH . A HOH 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? 
metalc ? metalc11 H MN MN . A MN 306 1_555 L O HOH . A HOH 420 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? 
metalc ? metalc12 I CA CA . A CA 307 1_555 L O HOH . A HOH 412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.381 ? 
metalc ? metalc13 I CA CA . A CA 307 1_555 L O HOH . A HOH 416 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.164 ? 
metalc ? metalc14 B OE2 GLU 8 B GLU 8 1_555 J MN MN . B MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.111 ? 
metalc ? metalc15 B OD2 ASP 10 B ASP 10 1_555 J MN MN . B MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? 
metalc ? metalc16 B OD1 ASP 10 B ASP 10 1_555 K CA CA . B CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.549 ? 
metalc ? metalc17 B OD2 ASP 10 B ASP 10 1_555 K CA CA . B CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.483 ? 
metalc ? metalc18 B O TYR 12 B TYR 12 1_555 K CA CA . B CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.43 ? 
metalc ? metalc19 B OD1 ASN 14 B ASN 14 1_555 K CA CA . B CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.306 ? 
metalc ? metalc20 B OD1 ASP 19 B ASP 19 1_555 J MN MN . B MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? 
metalc ? metalc21 B OD2 ASP 19 B ASP 19 1_555 K CA CA . B CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.212 ? 
metalc ? metalc22 B NE2 HIS 24 B HIS 24 1_555 J MN MN . B MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.211 ? 
metalc ? metalc23 J MN MN . B MN 301 1_555 M O HOH . B HOH 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? 
metalc ? metalc24 J MN MN . B MN 301 1_555 M O HOH . B HOH 411 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.223 ? 
metalc ? metalc25 K CA CA . B CA 302 1_555 M O HOH . B HOH 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? 
metalc ? metalc26 K CA CA . B CA 302 1_555 M O HOH . B HOH 414 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.34 ? 
#
_chem_comp.formula           'C6 H12 O6' 
_chem_comp.formula_weight    180.156 
_chem_comp.id                MAN 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              alpha-D-mannopyranose 
_chem_comp.type              'd-saccharide, alpha linking' 
_chem_comp.pdbx_synonyms     alpha-D-mannose;D-mannose;mannose 
#
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 MAN sing 215 n n 
C1 O1 MAN sing 216 n n 
C1 O5 MAN sing 217 n n 
C1 H1 MAN sing 218 n n 
C2 C3 MAN sing 219 n n 
C2 O2 MAN sing 220 n n 
C2 H2 MAN sing 221 n n 
C3 C4 MAN sing 222 n n 
C3 O3 MAN sing 223 n n 
C3 H3 MAN sing 224 n n 
C4 C5 MAN sing 225 n n 
C4 O4 MAN sing 226 n n 
C4 H4 MAN sing 227 n n 
C5 C6 MAN sing 228 n n 
C5 O5 MAN sing 229 n n 
C5 H5 MAN sing 230 n n 
C6 O6 MAN sing 231 n n 
C6 H61 MAN sing 232 n n 
C6 H62 MAN sing 233 n n 
O1 HO1 MAN sing 234 n n 
O2 HO2 MAN sing 235 n n 
O3 HO3 MAN sing 236 n n 
O4 HO4 MAN sing 237 n n 
O6 HO6 MAN sing 238 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
MAN DManpa 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 
MAN a-D-mannopyranose 'COMMON NAME' GMML 1 
MAN a-D-Manp 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 
MAN Man 'SNFG CARBOHYDRATE SYMBOL' GMML 1 
#
_atom_sites.entry_id                     8WMK 
_atom_sites.fract_transf_matrix[1][1]    0.008495 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.00667 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.008784 
_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]    0.01528 
_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 WU0 A 1 301 301 WU0 Man . 
D 3 ETA A 1 302 301 ETA Man . 
E 4 MAN A 1 303 301 MAN Man . 
F 3 ETA A 1 304 301 ETA Man . 
G 4 MAN A 1 305 301 MAN Man . 
H 5 MN A 1 306 1 MN MN . 
I 6 CA A 1 307 1 CA CA . 
J 5 MN B 1 301 2 MN MN . 
K 6 CA B 1 302 2 CA CA . 
L 7 HOH A 1 401 36 HOH HOH . 
L 7 HOH A 2 402 14 HOH HOH . 
L 7 HOH A 3 403 40 HOH HOH . 
L 7 HOH A 4 404 59 HOH HOH . 
L 7 HOH A 5 405 66 HOH HOH . 
L 7 HOH A 6 406 44 HOH HOH . 
L 7 HOH A 7 407 9 HOH HOH . 
L 7 HOH A 8 408 53 HOH HOH . 
L 7 HOH A 9 409 7 HOH HOH . 
L 7 HOH A 10 410 6 HOH HOH . 
L 7 HOH A 11 411 54 HOH HOH . 
L 7 HOH A 12 412 18 HOH HOH . 
L 7 HOH A 13 413 21 HOH HOH . 
L 7 HOH A 14 414 72 HOH HOH . 
L 7 HOH A 15 415 23 HOH HOH . 
L 7 HOH A 16 416 10 HOH HOH . 
L 7 HOH A 17 417 5 HOH HOH . 
L 7 HOH A 18 418 31 HOH HOH . 
L 7 HOH A 19 419 8 HOH HOH . 
L 7 HOH A 20 420 3 HOH HOH . 
L 7 HOH A 21 421 39 HOH HOH . 
L 7 HOH A 22 422 29 HOH HOH . 
L 7 HOH A 23 423 43 HOH HOH . 
L 7 HOH A 24 424 11 HOH HOH . 
L 7 HOH A 25 425 32 HOH HOH . 
L 7 HOH A 26 426 49 HOH HOH . 
L 7 HOH A 27 427 27 HOH HOH . 
L 7 HOH A 28 428 30 HOH HOH . 
L 7 HOH A 29 429 69 HOH HOH . 
L 7 HOH A 30 430 60 HOH HOH . 
L 7 HOH A 31 431 62 HOH HOH . 
L 7 HOH A 32 432 13 HOH HOH . 
L 7 HOH A 33 433 56 HOH HOH . 
L 7 HOH A 34 434 73 HOH HOH . 
L 7 HOH A 35 435 35 HOH HOH . 
L 7 HOH A 36 436 52 HOH HOH . 
L 7 HOH A 37 437 12 HOH HOH . 
L 7 HOH A 38 438 42 HOH HOH . 
L 7 HOH A 39 439 51 HOH HOH . 
L 7 HOH A 40 440 61 HOH HOH . 
L 7 HOH A 41 441 33 HOH HOH . 
L 7 HOH A 42 442 22 HOH HOH . 
L 7 HOH A 43 443 67 HOH HOH . 
M 7 HOH B 1 401 38 HOH HOH . 
M 7 HOH B 2 402 1 HOH HOH . 
M 7 HOH B 3 403 19 HOH HOH . 
M 7 HOH B 4 404 55 HOH HOH . 
M 7 HOH B 5 405 64 HOH HOH . 
M 7 HOH B 6 406 57 HOH HOH . 
M 7 HOH B 7 407 65 HOH HOH . 
M 7 HOH B 8 408 34 HOH HOH . 
M 7 HOH B 9 409 17 HOH HOH . 
M 7 HOH B 10 410 48 HOH HOH . 
M 7 HOH B 11 411 16 HOH HOH . 
M 7 HOH B 12 412 71 HOH HOH . 
M 7 HOH B 13 413 28 HOH HOH . 
M 7 HOH B 14 414 2 HOH HOH . 
M 7 HOH B 15 415 37 HOH HOH . 
M 7 HOH B 16 416 20 HOH HOH . 
M 7 HOH B 17 417 50 HOH HOH . 
M 7 HOH B 18 418 47 HOH HOH . 
M 7 HOH B 19 419 63 HOH HOH . 
M 7 HOH B 20 420 25 HOH HOH . 
M 7 HOH B 21 421 4 HOH HOH . 
M 7 HOH B 22 422 45 HOH HOH . 
M 7 HOH B 23 423 26 HOH HOH . 
M 7 HOH B 24 424 70 HOH HOH . 
M 7 HOH B 25 425 41 HOH HOH . 
M 7 HOH B 26 426 46 HOH HOH . 
M 7 HOH B 27 428 74 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 MAN . . . E 4 -1.124 13.225 8.264 1 35.3 ? C1 MAN 303 A 1 
HETATM 2 C C2 MAN . . . E 4 -2.574 12.739 8.248 1 32.51 ? C2 MAN 303 A 1 
HETATM 3 C C3 MAN . . . E 4 -3.535 13.931 8.079 1 30.79 ? C3 MAN 303 A 1 
HETATM 4 C C4 MAN . . . E 4 -3.215 15.166 8.956 1 31.21 ? C4 MAN 303 A 1 
HETATM 5 C C5 MAN . . . E 4 -1.726 15.57 8.873 1 30.86 ? C5 MAN 303 A 1 
HETATM 6 C C6 MAN . . . E 4 -1.228 16.619 9.842 1 28.11 ? C6 MAN 303 A 1 
HETATM 7 O O2 MAN . . . E 4 -2.735 12.012 9.511 1 26.72 ? O2 MAN 303 A 1 
HETATM 8 O O3 MAN . . . E 4 -4.833 13.505 8.42 1 29.87 ? O3 MAN 303 A 1 
HETATM 9 O O4 MAN . . . E 4 -4.01 16.276 8.498 1 28.4 ? O4 MAN 303 A 1 
HETATM 10 O O5 MAN . . . E 4 -0.95 14.405 9.11 1 33.13 ? O5 MAN 303 A 1 
HETATM 11 O O6 MAN . . . E 4 -1.157 15.967 11.114 1 29.87 ? O6 MAN 303 A 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           21 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           234 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           11 
#