data_4Y5R # _model_server_result.job_id nyQsStfkioNkcKx0V3p_Ng _model_server_result.datetime_utc '2025-03-24 15:17:47' _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 4y5r # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":401}' # _entry.id 4Y5R # _exptl.entry_id 4Y5R _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 40.078 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CALCIUM ION' _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 109.94 _cell.angle_beta 91.54 _cell.angle_gamma 105.78 _cell.entry_id 4Y5R _cell.length_a 55.53 _cell.length_b 83.52 _cell.length_c 107.78 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4Y5R _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 _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 ? 4 G N N ? 4 J 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 disulf ? disulf1 C SG CYS 17 C CYS 23 1_555 C SG CYS 82 C CYS 88 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.053 ? disulf ? disulf2 C SG CYS 17 C CYS 23 1_555 C SG CYS 82 C CYS 88 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.055 ? disulf ? disulf3 C SG CYS 23 C CYS 29 1_555 C SG CYS 55 C CYS 61 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf4 C SG CYS 30 C CYS 36 1_555 C SG CYS 115 C CYS 121 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf5 C SG CYS 32 C CYS 38 1_555 C SG CYS 80 C CYS 86 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf6 C SG CYS 40 C CYS 46 1_555 C SG CYS 71 C CYS 77 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf7 C SG CYS 72 C CYS 78 1_555 C SG CYS 103 C CYS 109 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? disulf ? disulf8 D SG CYS 171 D CYS 181 1_555 D SG CYS 186 D CYS 196 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.076 ? disulf ? disulf9 D SG CYS 171 D CYS 181 1_555 D SG CYS 186 D CYS 196 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.077 ? disulf ? disulf10 E SG CYS 17 E CYS 23 1_555 E SG CYS 82 E CYS 88 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.053 ? disulf ? disulf11 E SG CYS 17 E CYS 23 1_555 E SG CYS 82 E CYS 88 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.085 ? disulf ? disulf12 E SG CYS 23 E CYS 29 1_555 E SG CYS 55 E CYS 61 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf13 E SG CYS 30 E CYS 36 1_555 E SG CYS 115 E CYS 121 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf14 E SG CYS 30 E CYS 36 1_555 E SG CYS 115 E CYS 121 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf15 E SG CYS 32 E CYS 38 1_555 E SG CYS 80 E CYS 86 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.057 ? disulf ? disulf16 E SG CYS 32 E CYS 38 1_555 E SG CYS 80 E CYS 86 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.07 ? disulf ? disulf17 E SG CYS 40 E CYS 46 1_555 E SG CYS 71 E CYS 77 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? disulf ? disulf18 E SG CYS 72 E CYS 78 1_555 E SG CYS 103 E CYS 109 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf19 F SG CYS 171 F CYS 181 1_555 F SG CYS 186 F CYS 196 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf20 F SG CYS 171 F CYS 181 1_555 F SG CYS 186 F CYS 196 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.049 ? covale ? covale1 B SG CYS 26 B CYS 31 1_555 K CAB HEC . B HEC 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.926 ? covale ? covale2 C C SER 50 C SER 56 1_555 C N 0AF 51 C 0AF 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale3 C C 0AF 51 C 0AF 57 1_555 C N VAL 52 C VAL 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? covale ? covale4 E C SER 50 E SER 56 1_555 E N 0AF 51 E 0AF 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale5 E C 0AF 51 E 0AF 57 1_555 E N VAL 52 E VAL 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.343 ? metalc ? metalc1 A NE2 HIS 30 A HIS 35 1_555 H FE HEC . A HEC 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.256 ? metalc ? metalc2 A OD1 ASN 61 A ASN 66 1_555 G CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.243 ? metalc ? metalc3 A NE2 HIS 200 A HIS 205 1_555 I FE HEC . A HEC 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.162 ? metalc ? metalc4 A O THR 270 A THR 275 1_555 G CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc5 A O PRO 272 A PRO 277 1_555 G CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.466 ? metalc ? metalc6 A OH TYR 289 A TYR 294 1_555 I FE HEC . A HEC 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.916 ? metalc ? metalc7 G CA CA . A CA 401 1_555 M O HOH . A HOH 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.447 ? metalc ? metalc8 G CA CA . A CA 401 1_555 M O HOH . A HOH 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.644 ? metalc ? metalc9 G CA CA . A CA 401 1_555 M O HOH . A HOH 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.214 ? metalc ? metalc10 B NE2 HIS 30 B HIS 35 1_555 K FE HEC . B HEC 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.21 ? metalc ? metalc11 B OD1 ASN 61 B ASN 66 1_555 J CA CA . B CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? metalc ? metalc12 B NE2 HIS 200 B HIS 205 1_555 L FE HEC . B HEC 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.236 ? metalc ? metalc13 B O THR 270 B THR 275 1_555 J CA CA . B CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.668 ? metalc ? metalc14 B O PRO 272 B PRO 277 1_555 J CA CA . B CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.565 ? metalc ? metalc15 B OH TYR 289 B TYR 294 1_555 L FE HEC . B HEC 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.956 ? metalc ? metalc16 J CA CA . B CA 401 1_555 N O HOH . B HOH 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.252 ? metalc ? metalc17 J CA CA . B CA 401 1_555 N O HOH . B HOH 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.272 ? # _chem_comp.formula 'Ca 2' _chem_comp.formula_weight 40.078 _chem_comp.id CA _chem_comp.mon_nstd_flag . _chem_comp.name 'CALCIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 4Y5R _atom_sites.fract_transf_matrix[1][1] 0.018008 _atom_sites.fract_transf_matrix[1][2] 0.005089 _atom_sites.fract_transf_matrix[1][3] 0.002496 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012442 _atom_sites.fract_transf_matrix[2][3] 0.004834 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.009957 _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 G 4 CA A 1 401 400 CA CA . H 5 HEC A 1 402 500 HEC HEC . I 5 HEC A 1 403 600 HEC HEC . J 4 CA B 1 401 400 CA CA . K 5 HEC B 1 402 500 HEC HEC . L 5 HEC B 1 403 600 HEC HEC . M 6 HOH A 1 501 3 HOH HOH . M 6 HOH A 2 502 1 HOH HOH . M 6 HOH A 3 503 1 HOH HOH . M 6 HOH A 4 504 2 HOH HOH . N 6 HOH B 1 501 4 HOH HOH . N 6 HOH B 2 502 5 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol CA _atom_site.label_atom_id CA _atom_site.label_comp_id CA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id G _atom_site.label_entity_id 4 _atom_site.Cartn_x 24.011 _atom_site.Cartn_y 20.745 _atom_site.Cartn_z -76.179 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 32.67 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 401 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 34 _model_server_stats.parse_time_ms 24 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 342 _model_server_stats.encode_time_ms 23 _model_server_stats.element_count 1 #