data_3VK4 # _model_server_result.job_id 2xiB-pyyec53_PHDozW4iw _model_server_result.datetime_utc '2024-10-11 14:26:39' _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 3vk4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":501}' # _entry.id 3VK4 # _exptl.entry_id 3VK4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 135.185 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '2-AMINO-4-MERCAPTO-BUTYRIC ACID' _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 90 _cell.angle_gamma 90 _cell.entry_id 3VK4 _cell.length_a 153.488 _cell.length_b 153.487 _cell.length_c 80.671 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3VK4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F,I,J 1 1 C,D,G,H,K,L 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 ? 2 E N N ? 2 F N N ? 2 G N N ? 2 H 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 A C THR 210 A THR 210 1_555 A N LLP 211 A LLP 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? covale ? covale2 A C LLP 211 A LLP 211 1_555 A N TYR 212 A TYR 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.349 ? covale ? covale3 B C THR 210 B THR 210 1_555 B N LLP 211 B LLP 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.35 ? covale ? covale4 B C LLP 211 B LLP 211 1_555 B N TYR 212 B TYR 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.346 ? covale ? covale5 C C THR 210 C THR 210 1_555 C N LLP 211 C LLP 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale6 C C LLP 211 C LLP 211 1_555 C N TYR 212 C TYR 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.314 ? covale ? covale7 D C THR 210 D THR 210 1_555 D N LLP 211 D LLP 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale8 D C LLP 211 D LLP 211 1_555 D N TYR 212 D TYR 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? # _chem_comp.formula 'C4 H9 N O2 S' _chem_comp.formula_weight 135.185 _chem_comp.id HCS _chem_comp.mon_nstd_flag . _chem_comp.name '2-AMINO-4-MERCAPTO-BUTYRIC ACID' _chem_comp.type 'l-peptide linking' _chem_comp.pdbx_synonyms L-Homocysteine # 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 N CA HCS sing 129 n n N H HCS sing 130 n n N H2 HCS sing 131 n n CA CB HCS sing 132 n n CA C HCS sing 133 n n CA HA HCS sing 134 n n CB CG HCS sing 135 n n CB HB2 HCS sing 136 n n CB HB3 HCS sing 137 n n CG SD HCS sing 138 n n CG HG2 HCS sing 139 n n CG HG3 HCS sing 140 n n SD HD HCS sing 141 n n C OXT HCS sing 142 n n C O HCS doub 143 n n OXT HXT HCS sing 144 n n # _atom_sites.entry_id 3VK4 _atom_sites.fract_transf_matrix[1][1] 0.006515 _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] 0.006515 _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] 0.012396 _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 2 HCS A 1 501 501 HCS HCY . F 2 HCS B 1 501 501 HCS HCY . G 2 HCS C 1 501 501 HCS HCY . H 2 HCS D 1 501 501 HCS HCY . I 3 HOH A 1 399 5 HOH HOH . I 3 HOH A 2 400 17 HOH HOH . I 3 HOH A 3 401 18 HOH HOH . I 3 HOH A 4 402 19 HOH HOH . I 3 HOH A 5 403 20 HOH HOH . I 3 HOH A 6 404 26 HOH HOH . I 3 HOH A 7 405 31 HOH HOH . I 3 HOH A 8 406 32 HOH HOH . I 3 HOH A 9 407 33 HOH HOH . I 3 HOH A 10 408 36 HOH HOH . I 3 HOH A 11 409 43 HOH HOH . I 3 HOH A 12 410 50 HOH HOH . I 3 HOH A 13 411 60 HOH HOH . I 3 HOH A 14 412 63 HOH HOH . I 3 HOH A 15 413 65 HOH HOH . I 3 HOH A 16 414 68 HOH HOH . J 3 HOH B 1 399 3 HOH HOH . J 3 HOH B 2 400 4 HOH HOH . J 3 HOH B 3 401 6 HOH HOH . J 3 HOH B 4 402 7 HOH HOH . J 3 HOH B 5 403 11 HOH HOH . J 3 HOH B 6 404 16 HOH HOH . J 3 HOH B 7 405 21 HOH HOH . J 3 HOH B 8 406 22 HOH HOH . J 3 HOH B 9 407 27 HOH HOH . J 3 HOH B 10 408 39 HOH HOH . J 3 HOH B 11 409 42 HOH HOH . J 3 HOH B 12 410 44 HOH HOH . J 3 HOH B 13 411 48 HOH HOH . J 3 HOH B 14 412 49 HOH HOH . J 3 HOH B 15 413 52 HOH HOH . J 3 HOH B 16 414 53 HOH HOH . J 3 HOH B 17 415 55 HOH HOH . J 3 HOH B 18 416 57 HOH HOH . J 3 HOH B 19 417 58 HOH HOH . J 3 HOH B 20 418 62 HOH HOH . J 3 HOH B 21 419 66 HOH HOH . J 3 HOH B 22 420 70 HOH HOH . J 3 HOH B 23 421 71 HOH HOH . J 3 HOH B 24 422 73 HOH HOH . J 3 HOH B 25 423 77 HOH HOH . K 3 HOH C 1 399 1 HOH HOH . K 3 HOH C 2 400 8 HOH HOH . K 3 HOH C 3 401 9 HOH HOH . K 3 HOH C 4 402 12 HOH HOH . K 3 HOH C 5 403 13 HOH HOH . K 3 HOH C 6 404 14 HOH HOH . K 3 HOH C 7 405 15 HOH HOH . K 3 HOH C 8 406 24 HOH HOH . K 3 HOH C 9 407 25 HOH HOH . K 3 HOH C 10 408 29 HOH HOH . K 3 HOH C 11 409 40 HOH HOH . K 3 HOH C 12 410 41 HOH HOH . K 3 HOH C 13 411 47 HOH HOH . K 3 HOH C 14 412 61 HOH HOH . K 3 HOH C 15 413 64 HOH HOH . K 3 HOH C 16 414 72 HOH HOH . K 3 HOH C 17 415 76 HOH HOH . K 3 HOH C 18 416 79 HOH HOH . L 3 HOH D 1 399 2 HOH HOH . L 3 HOH D 2 400 10 HOH HOH . L 3 HOH D 3 401 23 HOH HOH . L 3 HOH D 4 402 28 HOH HOH . L 3 HOH D 5 403 30 HOH HOH . L 3 HOH D 6 404 34 HOH HOH . L 3 HOH D 7 405 35 HOH HOH . L 3 HOH D 8 406 37 HOH HOH . L 3 HOH D 9 407 38 HOH HOH . L 3 HOH D 10 408 45 HOH HOH . L 3 HOH D 11 409 46 HOH HOH . L 3 HOH D 12 410 51 HOH HOH . L 3 HOH D 13 411 54 HOH HOH . L 3 HOH D 14 412 56 HOH HOH . L 3 HOH D 15 413 59 HOH HOH . L 3 HOH D 16 414 67 HOH HOH . L 3 HOH D 17 415 69 HOH HOH . L 3 HOH D 18 416 74 HOH HOH . L 3 HOH D 19 417 75 HOH HOH . L 3 HOH D 20 418 78 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 N N HCS . . . F 2 -43.221 -2.482 -52.536 1 87.88 ? N HCS 501 B 1 HETATM 2 C CA HCS . . . F 2 -42.007 -1.72 -52.75 1 87.7 ? CA HCS 501 B 1 HETATM 3 C CB HCS . . . F 2 -41.454 -1.201 -51.424 1 87.8 ? CB HCS 501 B 1 HETATM 4 C CG HCS . . . F 2 -41.674 -2.089 -50.205 1 87.5 ? CG HCS 501 B 1 HETATM 5 S SD HCS . . . F 2 -40.072 -2.501 -49.474 1 86.93 ? SD HCS 501 B 1 HETATM 6 C C HCS . . . F 2 -41.017 -2.578 -53.48 1 87.74 ? C HCS 501 B 1 HETATM 7 O OXT HCS . . . F 2 -41.444 -3.226 -54.457 1 87.86 ? OXT HCS 501 B 1 HETATM 8 O O HCS . . . F 2 -39.825 -2.626 -53.108 1 87.71 ? O HCS 501 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 8 #