data_3V8C # _model_server_result.job_id 8ABxH6sQIDG5RRNhHtFNMg _model_server_result.datetime_utc '2024-11-09 01:55:01' _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 3v8c # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":507}' # _entry.id 3V8C # _exptl.entry_id 3V8C _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 180.156 _entity.id 5 _entity.src_method man _entity.type non-polymer _entity.pdbx_description alpha-D-mannopyranose _entity.pdbx_number_of_molecules 5 _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 90 _cell.entry_id 3V8C _cell.length_a 49.54 _cell.length_b 79.4 _cell.length_c 139.65 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3V8C _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,P,Q,R,S,T,U,V _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 G N N ? 5 I N N ? 5 L N N ? 5 Q N N ? 5 R N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 MAN _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O2 _pdbx_entity_branch_link.leaving_atom_id_2 HO2 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order 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 2 n C MAN 1 C 1 MAN B 808 MAN 2 n C NAG 2 C 2 NAG B 809 NAG # 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 26 A CYS 261 1_555 A SG CYS 86 A CYS 321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 A SG CYS 132 A CYS 367 1_555 A SG CYS 190 A CYS 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 B SG CYS 26 B CYS 261 1_555 B SG CYS 86 B CYS 321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf4 B SG CYS 132 B CYS 367 1_555 B SG CYS 190 B CYS 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.994 ? covale ? covale1 C O2 MAN . C MAN 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.532 ? # _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 255 n n C1 O1 MAN sing 256 n n C1 O5 MAN sing 257 n n C1 H1 MAN sing 258 n n C2 C3 MAN sing 259 n n C2 O2 MAN sing 260 n n C2 H2 MAN sing 261 n n C3 C4 MAN sing 262 n n C3 O3 MAN sing 263 n n C3 H3 MAN sing 264 n n C4 C5 MAN sing 265 n n C4 O4 MAN sing 266 n n C4 H4 MAN sing 267 n n C5 C6 MAN sing 268 n n C5 O5 MAN sing 269 n n C5 H5 MAN sing 270 n n C6 O6 MAN sing 271 n n C6 H61 MAN sing 272 n n C6 H62 MAN sing 273 n n O1 HO1 MAN sing 274 n n O2 HO2 MAN sing 275 n n O3 HO3 MAN sing 276 n n O4 HO4 MAN sing 277 n n O6 HO6 MAN sing 278 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 3V8C _atom_sites.fract_transf_matrix[1][1] 0.020186 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012594 _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] 0.007161 _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 D 3 NAG A 1 501 802 NAG NAG . E 3 NAG A 1 502 803 NAG NAG . F 4 GOL A 1 509 2 GOL GOL . G 5 MAN A 1 503 804 MAN MAN . H 4 GOL A 1 510 3 GOL GOL . I 5 MAN A 1 504 805 MAN MAN . J 3 NAG A 1 505 806 NAG NAG . K 6 GAL A 1 506 807 GAL GAL . L 5 MAN A 1 507 808 MAN MAN . M 3 NAG A 1 508 809 NAG NAG . N 3 NAG B 1 501 802 NAG NAG . O 4 GOL B 1 509 1 GOL GOL . P 3 NAG B 1 502 803 NAG NAG . Q 5 MAN B 1 503 804 MAN MAN . R 5 MAN B 1 504 805 MAN MAN . S 3 NAG B 1 505 806 NAG NAG . T 6 GAL B 1 506 807 GAL GAL . U 7 HOH A 1 601 1 HOH HOH . U 7 HOH A 2 602 4 HOH HOH . U 7 HOH A 3 603 5 HOH HOH . U 7 HOH A 4 604 6 HOH HOH . U 7 HOH A 5 605 11 HOH HOH . U 7 HOH A 6 606 13 HOH HOH . U 7 HOH A 7 607 14 HOH HOH . U 7 HOH A 8 608 16 HOH HOH . U 7 HOH A 9 609 17 HOH HOH . U 7 HOH A 10 610 18 HOH HOH . U 7 HOH A 11 611 19 HOH HOH . U 7 HOH A 12 612 20 HOH HOH . U 7 HOH A 13 613 22 HOH HOH . U 7 HOH A 14 614 30 HOH HOH . U 7 HOH A 15 615 31 HOH HOH . U 7 HOH A 16 616 32 HOH HOH . U 7 HOH A 17 617 33 HOH HOH . U 7 HOH A 18 618 35 HOH HOH . U 7 HOH A 19 619 36 HOH HOH . U 7 HOH A 20 620 38 HOH HOH . U 7 HOH A 21 621 39 HOH HOH . U 7 HOH A 22 622 40 HOH HOH . U 7 HOH A 23 623 46 HOH HOH . U 7 HOH A 24 624 48 HOH HOH . U 7 HOH A 25 625 51 HOH HOH . U 7 HOH A 26 626 52 HOH HOH . U 7 HOH A 27 627 53 HOH HOH . U 7 HOH A 28 628 54 HOH HOH . U 7 HOH A 29 629 60 HOH HOH . U 7 HOH A 30 630 61 HOH HOH . U 7 HOH A 31 631 63 HOH HOH . U 7 HOH A 32 632 64 HOH HOH . U 7 HOH A 33 633 65 HOH HOH . U 7 HOH A 34 634 67 HOH HOH . U 7 HOH A 35 635 75 HOH HOH . U 7 HOH A 36 636 83 HOH HOH . U 7 HOH A 37 637 84 HOH HOH . U 7 HOH A 38 638 85 HOH HOH . U 7 HOH A 39 639 86 HOH HOH . U 7 HOH A 40 640 87 HOH HOH . U 7 HOH A 41 641 88 HOH HOH . U 7 HOH A 42 642 89 HOH HOH . U 7 HOH A 43 643 92 HOH HOH . U 7 HOH A 44 644 93 HOH HOH . U 7 HOH A 45 645 95 HOH HOH . U 7 HOH A 46 646 96 HOH HOH . U 7 HOH A 47 647 97 HOH HOH . U 7 HOH A 48 648 98 HOH HOH . U 7 HOH A 49 649 448 HOH HOH . U 7 HOH A 50 650 449 HOH HOH . V 7 HOH B 1 601 7 HOH HOH . V 7 HOH B 2 602 8 HOH HOH . V 7 HOH B 3 603 9 HOH HOH . V 7 HOH B 4 604 10 HOH HOH . V 7 HOH B 5 605 12 HOH HOH . V 7 HOH B 6 606 15 HOH HOH . V 7 HOH B 7 607 21 HOH HOH . V 7 HOH B 8 608 23 HOH HOH . V 7 HOH B 9 609 24 HOH HOH . V 7 HOH B 10 610 25 HOH HOH . V 7 HOH B 11 611 26 HOH HOH . V 7 HOH B 12 612 27 HOH HOH . V 7 HOH B 13 613 28 HOH HOH . V 7 HOH B 14 614 29 HOH HOH . V 7 HOH B 15 615 34 HOH HOH . V 7 HOH B 16 616 37 HOH HOH . V 7 HOH B 17 617 41 HOH HOH . V 7 HOH B 18 618 42 HOH HOH . V 7 HOH B 19 619 43 HOH HOH . V 7 HOH B 20 620 44 HOH HOH . V 7 HOH B 21 621 45 HOH HOH . V 7 HOH B 22 622 47 HOH HOH . V 7 HOH B 23 623 49 HOH HOH . V 7 HOH B 24 624 50 HOH HOH . V 7 HOH B 25 625 55 HOH HOH . V 7 HOH B 26 626 56 HOH HOH . V 7 HOH B 27 627 57 HOH HOH . V 7 HOH B 28 628 58 HOH HOH . V 7 HOH B 29 629 59 HOH HOH . V 7 HOH B 30 630 62 HOH HOH . V 7 HOH B 31 631 66 HOH HOH . V 7 HOH B 32 632 68 HOH HOH . V 7 HOH B 33 633 69 HOH HOH . V 7 HOH B 34 634 70 HOH HOH . V 7 HOH B 35 635 71 HOH HOH . V 7 HOH B 36 636 72 HOH HOH . V 7 HOH B 37 637 73 HOH HOH . V 7 HOH B 38 638 74 HOH HOH . V 7 HOH B 39 639 76 HOH HOH . V 7 HOH B 40 640 77 HOH HOH . V 7 HOH B 41 641 78 HOH HOH . V 7 HOH B 42 642 79 HOH HOH . V 7 HOH B 43 643 80 HOH HOH . V 7 HOH B 44 644 81 HOH HOH . V 7 HOH B 45 645 82 HOH HOH . V 7 HOH B 46 646 90 HOH HOH . V 7 HOH B 47 647 91 HOH HOH . V 7 HOH B 48 648 94 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 . . . L 5 18.267 3.491 12.058 1 74.42 ? C1 MAN 507 A 1 HETATM 2 C C2 MAN . . . L 5 18.844 2.597 13.162 1 74.78 ? C2 MAN 507 A 1 HETATM 3 C C3 MAN . . . L 5 19.832 1.505 12.675 1 74.39 ? C3 MAN 507 A 1 HETATM 4 C C4 MAN . . . L 5 19.586 0.994 11.261 1 74.73 ? C4 MAN 507 A 1 HETATM 5 C C5 MAN . . . L 5 19.18 2.159 10.346 1 75.72 ? C5 MAN 507 A 1 HETATM 6 C C6 MAN . . . L 5 18.889 1.761 8.892 1 76.51 ? C6 MAN 507 A 1 HETATM 7 O O2 MAN . . . L 5 17.74 2.108 13.885 1 74.28 ? O2 MAN 507 A 1 HETATM 8 O O3 MAN . . . L 5 19.896 0.392 13.544 1 74.47 ? O3 MAN 507 A 1 HETATM 9 O O4 MAN . . . L 5 20.788 0.385 10.841 1 73.6 ? O4 MAN 507 A 1 HETATM 10 O O5 MAN . . . L 5 18.02 2.765 10.881 1 75.9 ? O5 MAN 507 A 1 HETATM 11 O O6 MAN . . . L 5 19.124 2.858 8.021 1 75.95 ? O6 MAN 507 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 424 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 11 #