data_5D2A # _model_server_result.job_id '_KGMkpsUS6_kizZOTtpZNQ' _model_server_result.datetime_utc '2024-10-28 02:30:39' _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 5d2a # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":102}' # _entry.id 5D2A # _exptl.entry_id 5D2A _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 180.156 _entity.id 6 _entity.src_method man _entity.type non-polymer _entity.pdbx_description beta-D-galactopyranose _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 5D2A _cell.length_a 105.107 _cell.length_b 105.107 _cell.length_c 111.092 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5D2A _symmetry.cell_setting ? _symmetry.Int_Tables_number 182 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 63 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details pentameric _pdbx_struct_assembly.oligomeric_count 5 _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,N,O _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 # _struct_asym.details ? _struct_asym.entity_id 6 _struct_asym.id K _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 C SG CYS 6 C CYS 7 1_555 C SG CYS 6 C CYS 7 11_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? covale ? covale1 C N ALA 1 C ALA 1 1_555 J C1' PHB . C PHB 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale2 J O4 PHB . C PHB 101 1_555 K C1 GAL . C GAL 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.422 ? covale ? covale3 D N ALA 1 D ALA 2 1_555 L C7 ZDC . D ZDC 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale4 E N ALA 1 E ALA 2 1_555 M C7 ZDC . E ZDC 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.474 ? metalc ? metalc1 A O ASN 21 A ASN 21 1_555 G CA CA . A CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.376 ? metalc ? metalc2 A OE1 GLU 95 A GLU 95 1_555 F CA CA . A CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.494 ? metalc ? metalc3 A OE2 GLU 95 A GLU 95 1_555 F CA CA . A CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.345 ? metalc ? metalc4 A OD1 ASP 99 A ASP 99 1_555 F CA CA . A CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.476 ? metalc ? metalc5 A OD1 ASP 101 A ASP 101 1_555 F CA CA . A CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.453 ? metalc ? metalc6 A OD1 ASP 101 A ASP 101 1_555 G CA CA . A CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.008 ? metalc ? metalc7 A OD2 ASP 101 A ASP 101 1_555 G CA CA . A CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.452 ? metalc ? metalc8 A OD1 ASN 103 A ASN 103 1_555 G CA CA . A CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.292 ? metalc ? metalc9 A OD1 ASP 104 A ASP 104 1_555 F CA CA . A CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.7 ? metalc ? metalc10 A OD2 ASP 104 A ASP 104 1_555 F CA CA . A CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.418 ? metalc ? metalc11 A OD1 ASP 104 A ASP 104 1_555 G CA CA . A CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? metalc ? metalc12 A O GLY 114 A GLY 114 1_555 I CA CA . B CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.553 ? metalc ? metalc13 F CA CA . A CA 201 1_555 M O3 ZDC . E ZDC 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.535 ? metalc ? metalc14 F CA CA . A CA 201 1_555 M O4 ZDC . E ZDC 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.506 ? metalc ? metalc15 G CA CA . A CA 202 1_555 B O GLY 114 B GLY 114 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.427 ? metalc ? metalc16 G CA CA . A CA 202 1_555 M O3 ZDC . E ZDC 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.304 ? metalc ? metalc17 G CA CA . A CA 202 1_555 M O2 ZDC . E ZDC 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.598 ? metalc ? metalc18 B O ASN 21 B ASN 21 1_555 I CA CA . B CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.368 ? metalc ? metalc19 B OE1 GLU 95 B GLU 95 1_555 H CA CA . B CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.471 ? metalc ? metalc20 B OE2 GLU 95 B GLU 95 1_555 H CA CA . B CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.279 ? metalc ? metalc21 B OD1 ASP 99 B ASP 99 1_555 H CA CA . B CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.404 ? metalc ? metalc22 B OD1 ASP 101 B ASP 101 1_555 H CA CA . B CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.353 ? metalc ? metalc23 B OD1 ASP 101 B ASP 101 1_555 I CA CA . B CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.028 ? metalc ? metalc24 B OD2 ASP 101 B ASP 101 1_555 I CA CA . B CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.532 ? metalc ? metalc25 B OD1 ASN 103 B ASN 103 1_555 I CA CA . B CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.568 ? metalc ? metalc26 B OD1 ASP 104 B ASP 104 1_555 H CA CA . B CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.587 ? metalc ? metalc27 B OD2 ASP 104 B ASP 104 1_555 H CA CA . B CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.506 ? metalc ? metalc28 B OD1 ASP 104 B ASP 104 1_555 I CA CA . B CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? metalc ? metalc29 H CA CA . B CA 201 1_555 L O4 ZDC . D ZDC 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.543 ? metalc ? metalc30 H CA CA . B CA 201 1_555 L O3 ZDC . D ZDC 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.497 ? metalc ? metalc31 I CA CA . B CA 202 1_555 L O3 ZDC . D ZDC 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.514 ? metalc ? metalc32 I CA CA . B CA 202 1_555 L O2 ZDC . D ZDC 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.445 ? # _chem_comp.formula 'C6 H12 O6' _chem_comp.formula_weight 180.156 _chem_comp.id GAL _chem_comp.mon_nstd_flag . _chem_comp.name beta-D-galactopyranose _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms beta-D-galactose;D-galactose;galactose # 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 GAL sing 83 n n C1 O1 GAL sing 84 n n C1 O5 GAL sing 85 n n C1 H1 GAL sing 86 n n C2 C3 GAL sing 87 n n C2 O2 GAL sing 88 n n C2 H2 GAL sing 89 n n C3 C4 GAL sing 90 n n C3 O3 GAL sing 91 n n C3 H3 GAL sing 92 n n C4 C5 GAL sing 93 n n C4 O4 GAL sing 94 n n C4 H4 GAL sing 95 n n C5 C6 GAL sing 96 n n C5 O5 GAL sing 97 n n C5 H5 GAL sing 98 n n C6 O6 GAL sing 99 n n C6 H61 GAL sing 100 n n C6 H62 GAL sing 101 n n O1 HO1 GAL sing 102 n n O2 HO2 GAL sing 103 n n O3 HO3 GAL sing 104 n n O4 HO4 GAL sing 105 n n O6 HO6 GAL sing 106 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 GAL DGalpb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 GAL b-D-galactopyranose 'COMMON NAME' GMML 1 GAL b-D-Galp 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 GAL Gal 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 5D2A _atom_sites.fract_transf_matrix[1][1] 0.009514 _atom_sites.fract_transf_matrix[1][2] 0.005493 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010986 _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] 0.009002 _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 F 4 CA A 1 201 997 CA CA . G 4 CA A 1 202 998 CA CA . H 4 CA B 1 201 997 CA CA . I 4 CA B 1 202 998 CA CA . J 5 PHB C 1 101 200 PHB GM9 . K 6 GAL C 1 102 200 GAL GM9 . L 7 ZDC D 1 101 200 ZDC GM9 . M 7 ZDC E 1 101 200 ZDC GM9 . N 8 HOH A 1 301 9 HOH HOH . N 8 HOH A 2 302 22 HOH HOH . N 8 HOH A 3 303 4 HOH HOH . N 8 HOH A 4 304 1 HOH HOH . N 8 HOH A 5 305 81 HOH HOH . N 8 HOH A 6 306 80 HOH HOH . N 8 HOH A 7 307 23 HOH HOH . N 8 HOH A 8 308 30 HOH HOH . N 8 HOH A 9 309 46 HOH HOH . N 8 HOH A 10 310 82 HOH HOH . N 8 HOH A 11 311 62 HOH HOH . N 8 HOH A 12 312 13 HOH HOH . N 8 HOH A 13 313 19 HOH HOH . N 8 HOH A 14 314 15 HOH HOH . N 8 HOH A 15 315 59 HOH HOH . N 8 HOH A 16 316 50 HOH HOH . N 8 HOH A 17 317 84 HOH HOH . N 8 HOH A 18 318 28 HOH HOH . N 8 HOH A 19 319 7 HOH HOH . N 8 HOH A 20 320 17 HOH HOH . N 8 HOH A 21 321 27 HOH HOH . N 8 HOH A 22 322 66 HOH HOH . N 8 HOH A 23 323 26 HOH HOH . N 8 HOH A 24 324 71 HOH HOH . N 8 HOH A 25 325 48 HOH HOH . N 8 HOH A 26 326 38 HOH HOH . N 8 HOH A 27 327 3 HOH HOH . N 8 HOH A 28 328 40 HOH HOH . N 8 HOH A 29 329 83 HOH HOH . N 8 HOH A 30 330 2 HOH HOH . N 8 HOH A 31 331 56 HOH HOH . N 8 HOH A 32 332 36 HOH HOH . N 8 HOH A 33 333 61 HOH HOH . N 8 HOH A 34 334 41 HOH HOH . N 8 HOH A 35 335 43 HOH HOH . N 8 HOH A 36 336 45 HOH HOH . N 8 HOH A 37 337 37 HOH HOH . O 8 HOH B 1 301 18 HOH HOH . O 8 HOH B 2 302 32 HOH HOH . O 8 HOH B 3 303 31 HOH HOH . O 8 HOH B 4 304 8 HOH HOH . O 8 HOH B 5 305 5 HOH HOH . O 8 HOH B 6 306 24 HOH HOH . O 8 HOH B 7 307 16 HOH HOH . O 8 HOH B 8 308 29 HOH HOH . O 8 HOH B 9 309 42 HOH HOH . O 8 HOH B 10 310 14 HOH HOH . O 8 HOH B 11 311 39 HOH HOH . O 8 HOH B 12 312 65 HOH HOH . O 8 HOH B 13 313 20 HOH HOH . O 8 HOH B 14 314 21 HOH HOH . O 8 HOH B 15 315 51 HOH HOH . O 8 HOH B 16 316 57 HOH HOH . O 8 HOH B 17 317 25 HOH HOH . O 8 HOH B 18 318 64 HOH HOH . O 8 HOH B 19 319 11 HOH HOH . O 8 HOH B 20 320 6 HOH HOH . O 8 HOH B 21 321 67 HOH HOH . O 8 HOH B 22 322 52 HOH HOH . O 8 HOH B 23 323 12 HOH HOH . O 8 HOH B 24 324 55 HOH HOH . O 8 HOH B 25 325 10 HOH HOH . O 8 HOH B 26 326 73 HOH HOH . O 8 HOH B 27 327 72 HOH HOH . O 8 HOH B 28 328 53 HOH HOH . O 8 HOH B 29 329 63 HOH HOH . O 8 HOH B 30 330 60 HOH HOH . O 8 HOH B 31 331 47 HOH HOH . O 8 HOH B 32 332 49 HOH HOH . O 8 HOH B 33 333 69 HOH HOH . O 8 HOH B 34 334 44 HOH HOH . O 8 HOH B 35 335 54 HOH HOH . O 8 HOH B 36 336 34 HOH HOH . O 8 HOH B 37 337 33 HOH HOH . O 8 HOH B 38 338 68 HOH HOH . O 8 HOH B 39 339 74 HOH HOH . O 8 HOH B 40 340 35 HOH HOH . O 8 HOH B 41 341 70 HOH HOH . O 8 HOH B 42 342 58 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 GAL . . . K 6 -69.922 37.182 28.574 1 112.07 ? C1 GAL 102 C 1 HETATM 2 C C2 GAL . . . K 6 -70.234 35.721 28.17 1 112.2 ? C2 GAL 102 C 1 HETATM 3 C C3 GAL . . . K 6 -71.634 35.259 28.547 1 112.67 ? C3 GAL 102 C 1 HETATM 4 C C4 GAL . . . K 6 -72.007 35.665 29.956 1 111.98 ? C4 GAL 102 C 1 HETATM 5 C C5 GAL . . . K 6 -71.799 37.146 30.088 1 110.65 ? C5 GAL 102 C 1 HETATM 6 C C6 GAL . . . K 6 -72.104 37.634 31.507 1 108.48 ? C6 GAL 102 C 1 HETATM 7 O O2 GAL . . . K 6 -70.097 35.576 26.779 1 112.26 ? O2 GAL 102 C 1 HETATM 8 O O3 GAL . . . K 6 -71.69 33.858 28.444 1 112.38 ? O3 GAL 102 C 1 HETATM 9 O O4 GAL . . . K 6 -71.234 34.94 30.896 1 107.75 ? O4 GAL 102 C 1 HETATM 10 O O5 GAL . . . K 6 -70.461 37.467 29.836 1 110.35 ? O5 GAL 102 C 1 HETATM 11 O O6 GAL . . . K 6 -71.097 38.566 31.88 1 98.32 ? O6 GAL 102 C 1 # _model_server_stats.io_time_ms 64 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 11 #