data_6VW1 # _model_server_result.job_id xxKIdothHtWsLwhFkeyvIw _model_server_result.datetime_utc '2024-11-07 19:30:37' _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 6vw1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"P","auth_seq_id":706}' # _entry.id 6VW1 # _exptl.entry_id 6VW1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 62.068 _entity.id 8 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 1,2-ETHANEDIOL _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 93.12 _cell.angle_gamma 90 _cell.entry_id 6VW1 _cell.length_a 80.435 _cell.length_b 118.034 _cell.length_c 112.075 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6VW1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall 'P 2yb' _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? dimeric 2 author_defined_assembly 1 ? dimeric 2 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E,F,G,H,L,N,O,P,Q,Y,AA 1 1 B,D,I,J,K,M,R,S,T,U,V,W,X,Z,BA 2 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 ? 8 P N N ? 8 T N N ? 8 U N N ? 8 V N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 3 oligosaccharide 4 oligosaccharide 5 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 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 4 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 5 ? 5 3 2 BMA NAG C1 O1 . O4 HO4 . sing 6 ? 5 4 3 NAG 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 E NAG 1 C 1 NAG A 701 NAG 3 n E NAG 2 C 2 NAG A 702 NAG 3 n E BMA 3 C 3 BMA A 703 BMA 3 n F NAG 1 D 1 NAG A 707 NAG 3 n F NAG 2 D 2 NAG A 708 NAG 3 n F BMA 3 D 3 BMA A 709 BMA 4 n G NAG 1 G 1 NAG A 710 NAG 4 n G NAG 2 G 2 NAG A 711 NAG 4 n H NAG 1 H 1 NAG A 712 NAG 4 n H NAG 2 H 2 NAG A 713 NAG 4 n I NAG 1 I 1 NAG B 701 NAG 4 n I NAG 2 I 2 NAG B 702 NAG 5 n J NAG 1 J 1 NAG B 708 NAG 5 n J NAG 2 J 2 NAG B 709 NAG 5 n J BMA 3 J 3 BMA B 710 BMA 5 n J NAG 4 J 4 NAG B 711 NAG 4 n K NAG 1 K 1 NAG B 712 NAG 4 n K NAG 2 K 2 NAG B 713 NAG 3 n L NAG 1 L 1 NAG E 601 NAG 3 n L NAG 2 L 2 NAG E 602 NAG 3 n L BMA 3 L 3 BMA E 603 BMA 4 n M NAG 1 M 1 NAG F 601 NAG 4 n M NAG 2 M 2 NAG F 602 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 115 A CYS 133 1_555 A SG CYS 123 A CYS 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 A SG CYS 326 A CYS 344 1_555 A SG CYS 343 A CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 512 A CYS 530 1_555 A SG CYS 524 A CYS 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 B SG CYS 115 B CYS 133 1_555 B SG CYS 123 B CYS 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 B SG CYS 326 B CYS 344 1_555 B SG CYS 343 B CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf6 B SG CYS 512 B CYS 530 1_555 B SG CYS 524 B CYS 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf7 C SG CYS 18 E CYS 336 1_555 C SG CYS 43 E CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf8 C SG CYS 61 E CYS 379 1_555 C SG CYS 114 E CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf9 C SG CYS 73 E CYS 391 1_555 C SG CYS 207 E CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf10 C SG CYS 162 E CYS 480 1_555 C SG CYS 170 E CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf11 D SG CYS 18 F CYS 336 1_555 D SG CYS 43 F CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf12 D SG CYS 61 F CYS 379 1_555 D SG CYS 114 F CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf13 D SG CYS 162 F CYS 480 1_555 D SG CYS 170 F CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? covale ? covale1 A ND2 ASN 35 A ASN 53 1_555 G C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale2 A ND2 ASN 72 A ASN 90 1_555 E C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale3 A ND2 ASN 85 A ASN 103 1_555 Q C1 NAG . A NAG 714 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale4 A ND2 ASN 304 A ASN 322 1_555 H C1 NAG . H NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale5 A ND2 ASN 528 A ASN 546 1_555 F C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale6 B ND2 ASN 72 B ASN 90 1_555 I C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale7 B ND2 ASN 85 B ASN 103 1_555 X C1 NAG . B NAG 715 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale8 B ND2 ASN 304 B ASN 322 1_555 K C1 NAG . K NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale9 B ND2 ASN 414 B ASN 432 1_555 W C1 NAG . B NAG 714 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale10 B ND2 ASN 528 B ASN 546 1_555 J C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale11 C ND2 ASN 25 E ASN 343 1_555 L C1 NAG . L NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale12 D ND2 ASN 25 F ASN 343 1_555 M C1 NAG . M NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale13 E O4 NAG . C NAG 1 1_555 E C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale14 E O4 NAG . C NAG 2 1_555 E C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale15 F O4 NAG . D NAG 1 1_555 F C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale16 F O4 NAG . D NAG 2 1_555 F C1 BMA . D BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale17 G O4 NAG . G NAG 1 1_555 G C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale18 H O4 NAG . H NAG 1 1_555 H C1 NAG . H NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale19 I O4 NAG . I NAG 1 1_555 I C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale20 J O4 NAG . J NAG 1 1_555 J C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale21 J O4 NAG . J NAG 2 1_555 J C1 BMA . J BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale22 J O3 BMA . J BMA 3 1_555 J C1 NAG . J NAG 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale23 K O4 NAG . K NAG 1 1_555 K C1 NAG . K NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale24 L O4 NAG . L NAG 1 1_555 L C1 NAG . L NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale25 L O4 NAG . L NAG 2 1_555 L C1 BMA . L BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.47 ? covale ? covale26 M O4 NAG . M NAG 1 1_555 M C1 NAG . M NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.461 ? metalc ? metalc1 N ZN ZN . A ZN 704 1_555 Y O HOH . A HOH 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.655 ? # _chem_comp.formula 'C2 H6 O2' _chem_comp.formula_weight 62.068 _chem_comp.id EDO _chem_comp.mon_nstd_flag . _chem_comp.name 1,2-ETHANEDIOL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'ETHYLENE GLYCOL' # 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 O1 EDO sing 107 n n C1 C2 EDO sing 108 n n C1 H11 EDO sing 109 n n C1 H12 EDO sing 110 n n O1 HO1 EDO sing 111 n n C2 O2 EDO sing 112 n n C2 H21 EDO sing 113 n n C2 H22 EDO sing 114 n n O2 HO2 EDO sing 115 n n # _atom_sites.entry_id 6VW1 _atom_sites.fract_transf_matrix[1][1] 0.012432 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000678 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008472 _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] 0.008936 _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 N 6 ZN A 1 704 704 ZN ZN . O 7 CL A 1 705 705 CL CL . P 8 EDO A 1 706 706 EDO EDO . Q 9 NAG A 1 714 901 NAG NAG . R 6 ZN B 1 703 703 ZN ZN . S 7 CL B 1 704 704 CL CL . T 8 EDO B 1 705 705 EDO EDO . U 8 EDO B 1 706 706 EDO EDO . V 8 EDO B 1 707 707 EDO EDO . W 9 NAG B 1 714 714 NAG NAG . X 9 NAG B 1 715 715 NAG NAG . Y 10 HOH A 1 801 802 HOH HOH . Y 10 HOH A 2 802 11 HOH HOH . Y 10 HOH A 3 803 801 HOH HOH . Y 10 HOH A 4 804 805 HOH HOH . Y 10 HOH A 5 805 803 HOH HOH . Y 10 HOH A 6 806 804 HOH HOH . Y 10 HOH A 7 807 807 HOH HOH . Y 10 HOH A 8 808 6 HOH HOH . Y 10 HOH A 9 809 4 HOH HOH . Y 10 HOH A 10 810 12 HOH HOH . Y 10 HOH A 11 811 9 HOH HOH . Y 10 HOH A 12 812 1 HOH HOH . Y 10 HOH A 13 813 806 HOH HOH . Z 10 HOH B 1 801 5 HOH HOH . Z 10 HOH B 2 802 801 HOH HOH . Z 10 HOH B 3 803 3 HOH HOH . Z 10 HOH B 4 804 10 HOH HOH . Z 10 HOH B 5 805 802 HOH HOH . Z 10 HOH B 6 806 2 HOH HOH . Z 10 HOH B 7 807 7 HOH HOH . Z 10 HOH B 8 808 15 HOH HOH . AA 10 HOH E 1 701 701 HOH HOH . AA 10 HOH E 2 702 14 HOH HOH . AA 10 HOH E 3 703 702 HOH HOH . AA 10 HOH E 4 704 13 HOH HOH . BA 10 HOH F 1 701 8 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 EDO . . . P 8 115.522 24.679 145.051 1 109.19 ? C1 EDO 706 A 1 HETATM 2 O O1 EDO . . . P 8 114.17 24.238 144.883 1 105.99 ? O1 EDO 706 A 1 HETATM 3 C C2 EDO . . . P 8 115.625 25.543 146.302 1 111.19 ? C2 EDO 706 A 1 HETATM 4 O O2 EDO . . . P 8 114.708 26.639 146.211 1 113.46 ? O2 EDO 706 A 1 # _model_server_stats.io_time_ms 44 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 32 _model_server_stats.query_time_ms 325 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 4 #