data_5VCO # _model_server_result.job_id S1a0cqH11yAcgVNsHm5p7A _model_server_result.datetime_utc '2024-10-12 19:27:14' _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 5vco # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":302}' # _entry.id 5VCO # _exptl.entry_id 5VCO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 40.078 _entity.id 5 _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 90 _cell.angle_beta 97.42 _cell.angle_gamma 90 _cell.entry_id 5VCO _cell.length_a 50.685 _cell.length_b 74.852 _cell.length_c 184.103 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5VCO _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _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 ? trimeric 3 author_defined_assembly 1 ? trimeric 3 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,B,F,I,J,K,L,P 1 1 C,D,E,G,H,M,N,O 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 ? 5 H N N ? 5 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 A SG CYS 23 A CYS 23 1_555 A SG CYS 88 A CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? disulf ? disulf2 A SG CYS 134 A CYS 134 1_555 A SG CYS 194 A CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf3 B SG CYS 22 B CYS 22 1_555 B SG CYS 95 B CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf4 B SG CYS 149 B CYS 149 1_555 B SG CYS 204 B CYS 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf5 C SG CYS 23 C CYS 23 1_555 C SG CYS 88 C CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? disulf ? disulf6 C SG CYS 134 C CYS 134 1_555 C SG CYS 194 C CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf7 D SG CYS 22 D CYS 22 1_555 D SG CYS 95 D CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? disulf ? disulf8 D SG CYS 149 D CYS 149 1_555 D SG CYS 204 D CYS 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf9 E SG CYS 4 E CYS 4 1_555 E SG CYS 117 E CYS 117 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf10 E SG CYS 31 E CYS 31 1_555 E SG CYS 71 E CYS 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? disulf ? disulf11 E SG CYS 65 E CYS 65 1_555 E SG CYS 103 E CYS 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf12 F SG CYS 4 F CYS 4 1_555 F SG CYS 117 F CYS 117 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf13 F SG CYS 31 F CYS 31 1_555 F SG CYS 71 F CYS 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf14 F SG CYS 65 F CYS 65 1_555 F SG CYS 103 F CYS 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? covale ? covale1 E ND2 ASN 52 E ASN 52 1_555 G C1 NAG . E NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale2 F ND2 ASN 52 F ASN 52 1_555 I C1 NAG . F NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? metalc ? metalc1 E OD1 ASP 56 E ASP 56 1_555 H CA CA . E CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.355 ? metalc ? metalc2 E O LEU 57 E LEU 57 1_555 H CA CA . E CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.413 ? metalc ? metalc3 E OE2 GLU 59 E GLU 59 1_555 H CA CA . E CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.401 ? metalc ? metalc4 E OE1 GLU 91 E GLU 91 1_555 H CA CA . E CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.404 ? metalc ? metalc5 F OD1 ASP 56 F ASP 56 1_555 J CA CA . F CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.451 ? metalc ? metalc6 F O LEU 57 F LEU 57 1_555 J CA CA . F CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.515 ? metalc ? metalc7 F OE1 GLU 59 F GLU 59 1_555 J CA CA . F CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.076 ? metalc ? metalc8 F OE2 GLU 59 F GLU 59 1_555 J CA CA . F CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.528 ? metalc ? metalc9 F OE1 GLU 91 F GLU 91 1_555 J CA CA . F CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? # _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 5VCO _atom_sites.fract_transf_matrix[1][1] 0.01973 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002568 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01336 _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] 0.005478 _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 NAG E 1 301 301 NAG NAG . H 5 CA E 1 302 302 CA CA . I 4 NAG F 1 301 301 NAG NAG . J 5 CA F 1 302 302 CA CA . K 6 HOH A 1 301 302 HOH HOH . L 6 HOH B 1 301 301 HOH HOH . M 6 HOH C 1 301 302 HOH HOH . M 6 HOH C 2 302 307 HOH HOH . M 6 HOH C 3 303 304 HOH HOH . M 6 HOH C 4 304 306 HOH HOH . M 6 HOH C 5 305 303 HOH HOH . M 6 HOH C 6 306 301 HOH HOH . M 6 HOH C 7 307 305 HOH HOH . N 6 HOH D 1 301 301 HOH HOH . O 6 HOH E 1 401 403 HOH HOH . O 6 HOH E 2 402 405 HOH HOH . O 6 HOH E 3 403 401 HOH HOH . O 6 HOH E 4 404 407 HOH HOH . O 6 HOH E 5 405 406 HOH HOH . O 6 HOH E 6 406 402 HOH HOH . O 6 HOH E 7 407 404 HOH HOH . P 6 HOH F 1 401 301 HOH HOH . P 6 HOH F 2 402 402 HOH HOH . P 6 HOH F 3 403 403 HOH HOH . P 6 HOH F 4 404 302 HOH HOH . P 6 HOH F 5 405 401 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 J _atom_site.label_entity_id 5 _atom_site.Cartn_x 24.801 _atom_site.Cartn_y -27.523 _atom_site.Cartn_z 81.523 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 61.13 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 302 _atom_site.auth_asym_id F _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 24 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 273 _model_server_stats.encode_time_ms 13 _model_server_stats.element_count 1 #