data_4R9T # _model_server_result.job_id 434kTUx2XrpSlwJU4b02Cw _model_server_result.datetime_utc '2024-11-28 20:55:31' _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 4r9t # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":302}' # _entry.id 4R9T # _exptl.entry_id 4R9T _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 3 _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 120 _cell.entry_id 4R9T _cell.length_a 96.11 _cell.length_b 96.11 _cell.length_c 141.19 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4R9T _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 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 PISA monomeric 1 software_defined_assembly 2 PISA monomeric 1 software_defined_assembly 3 PISA monomeric 1 software_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P 1 1 B,I,J,O 2 1 A,D,E,F,G,H,N 3 1 C,K,L,M,P 4 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 F N N ? 4 I N N ? 4 L 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 NAG _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 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _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 D NAG 1 D 1 NAG B 301 NAG 2 n D NAG 2 D 2 NAG B 302 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 3 B CYS 73 1_555 A SG CYS 31 B CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? disulf ? disulf2 A SG CYS 10 B CYS 80 1_555 A SG CYS 38 B CYS 108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.148 ? disulf ? disulf3 A SG CYS 162 B CYS 232 1_555 A SG CYS 175 B CYS 245 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? disulf ? disulf4 B SG CYS 10 A CYS 80 1_555 B SG CYS 38 A CYS 108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.103 ? disulf ? disulf5 B SG CYS 162 A CYS 232 1_555 B SG CYS 175 A CYS 245 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? disulf ? disulf6 C SG CYS 10 C CYS 80 1_555 C SG CYS 38 C CYS 108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? disulf ? disulf7 C SG CYS 162 C CYS 232 1_555 C SG CYS 175 C CYS 245 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? covale ? covale1 A ND2 ASN 145 B ASN 215 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale2 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? metalc ? metalc1 A OD2 ASP 154 B ASP 224 1_555 F CA CA . B CA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.343 ? metalc ? metalc2 A OD1 ASP 154 B ASP 224 1_555 F CA CA . B CA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.424 ? metalc ? metalc3 A OD1 ASP 156 B ASP 226 1_555 F CA CA . B CA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? metalc ? metalc4 A O ASN 158 B ASN 228 1_555 F CA CA . B CA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.357 ? metalc ? metalc5 A O GLY 160 B GLY 230 1_555 F CA CA . B CA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.285 ? metalc ? metalc6 F CA CA . B CA 304 1_555 N O HOH . B HOH 422 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.399 ? metalc ? metalc7 F CA CA . B CA 304 1_555 N O HOH . B HOH 424 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? metalc ? metalc8 B OD2 ASP 154 A ASP 224 1_555 I CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? metalc ? metalc9 B OD1 ASP 154 A ASP 224 1_555 I CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.353 ? metalc ? metalc10 B OD1 ASP 156 A ASP 226 1_555 I CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? metalc ? metalc11 B O ASN 158 A ASN 228 1_555 I CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.342 ? metalc ? metalc12 B O GLY 160 A GLY 230 1_555 I CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? metalc ? metalc13 I CA CA . A CA 301 1_555 O O HOH . A HOH 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? metalc ? metalc14 C OD2 ASP 154 C ASP 224 1_555 L CA CA . C CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.33 ? metalc ? metalc15 C OD1 ASP 154 C ASP 224 1_555 L CA CA . C CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.39 ? metalc ? metalc16 C OD1 ASP 156 C ASP 226 1_555 L CA CA . C CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.309 ? metalc ? metalc17 C O ASN 158 C ASN 228 1_555 L CA CA . C CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.37 ? metalc ? metalc18 C O GLY 160 C GLY 230 1_555 L CA CA . C CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.298 ? metalc ? metalc19 L CA CA . C CA 302 1_555 P O HOH . C HOH 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.337 ? metalc ? metalc20 L CA CA . C CA 302 1_555 P O HOH . C HOH 412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? # _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 4R9T _atom_sites.fract_transf_matrix[1][1] 0.010405 _atom_sites.fract_transf_matrix[1][2] 0.006007 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012014 _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] 0.007083 _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 3 ACT B 1 303 303 ACT ACT . F 4 CA B 1 304 304 CA CA . G 5 SO4 B 1 305 305 SO4 SO4 . H 5 SO4 B 1 306 306 SO4 SO4 . I 4 CA A 1 301 301 CA CA . J 5 SO4 A 1 302 302 SO4 SO4 . K 3 ACT C 1 301 301 ACT ACT . L 4 CA C 1 302 302 CA CA . M 5 SO4 C 1 303 303 SO4 SO4 . N 6 HOH B 1 401 401 HOH HOH . N 6 HOH B 2 402 402 HOH HOH . N 6 HOH B 3 403 403 HOH HOH . N 6 HOH B 4 404 404 HOH HOH . N 6 HOH B 5 405 405 HOH HOH . N 6 HOH B 6 406 406 HOH HOH . N 6 HOH B 7 407 407 HOH HOH . N 6 HOH B 8 408 408 HOH HOH . N 6 HOH B 9 409 409 HOH HOH . N 6 HOH B 10 410 410 HOH HOH . N 6 HOH B 11 411 411 HOH HOH . N 6 HOH B 12 412 412 HOH HOH . N 6 HOH B 13 413 413 HOH HOH . N 6 HOH B 14 414 414 HOH HOH . N 6 HOH B 15 415 415 HOH HOH . N 6 HOH B 16 416 416 HOH HOH . N 6 HOH B 17 417 417 HOH HOH . N 6 HOH B 18 418 418 HOH HOH . N 6 HOH B 19 419 419 HOH HOH . N 6 HOH B 20 420 420 HOH HOH . N 6 HOH B 21 421 421 HOH HOH . N 6 HOH B 22 422 422 HOH HOH . N 6 HOH B 23 423 423 HOH HOH . N 6 HOH B 24 424 424 HOH HOH . N 6 HOH B 25 425 425 HOH HOH . N 6 HOH B 26 426 426 HOH HOH . N 6 HOH B 27 427 427 HOH HOH . N 6 HOH B 28 428 428 HOH HOH . N 6 HOH B 29 429 429 HOH HOH . N 6 HOH B 30 430 430 HOH HOH . N 6 HOH B 31 431 431 HOH HOH . N 6 HOH B 32 432 432 HOH HOH . N 6 HOH B 33 433 433 HOH HOH . O 6 HOH A 1 401 401 HOH HOH . O 6 HOH A 2 402 402 HOH HOH . O 6 HOH A 3 403 403 HOH HOH . O 6 HOH A 4 404 404 HOH HOH . O 6 HOH A 5 405 405 HOH HOH . O 6 HOH A 6 406 406 HOH HOH . O 6 HOH A 7 407 407 HOH HOH . P 6 HOH C 1 401 401 HOH HOH . P 6 HOH C 2 402 402 HOH HOH . P 6 HOH C 3 403 403 HOH HOH . P 6 HOH C 4 404 404 HOH HOH . P 6 HOH C 5 405 405 HOH HOH . P 6 HOH C 6 406 406 HOH HOH . P 6 HOH C 7 407 407 HOH HOH . P 6 HOH C 8 408 408 HOH HOH . P 6 HOH C 9 409 409 HOH HOH . P 6 HOH C 10 410 410 HOH HOH . P 6 HOH C 11 411 411 HOH HOH . P 6 HOH C 12 412 412 HOH HOH . P 6 HOH C 13 413 413 HOH HOH . P 6 HOH C 14 414 414 HOH HOH . P 6 HOH C 15 415 415 HOH HOH . P 6 HOH C 16 416 416 HOH HOH . P 6 HOH C 17 417 417 HOH HOH . P 6 HOH C 18 418 418 HOH HOH . P 6 HOH C 19 419 419 HOH HOH . P 6 HOH C 20 420 420 HOH HOH . P 6 HOH C 21 421 421 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 L _atom_site.label_entity_id 4 _atom_site.Cartn_x -22.492 _atom_site.Cartn_y -8.608 _atom_site.Cartn_z 4.944 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 42.52 _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 C _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 282 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #