data_3WCU # _model_server_result.job_id TsWJ4jOqMI27-UndPldrsA _model_server_result.datetime_utc '2024-11-05 00:25:51' _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 3wcu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":202}' # _entry.id 3WCU # _exptl.entry_id 3WCU _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 40.078 _entity.id 7 _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 90 _cell.angle_gamma 120 _cell.entry_id 3WCU _cell.length_a 108.872 _cell.length_b 108.872 _cell.length_c 195.157 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3WCU _symmetry.cell_setting ? _symmetry.Int_Tables_number 173 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 63' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details 24-meric _pdbx_struct_assembly.oligomeric_count 24 _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,O,P,Q,R,S,T _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_655 -y+1,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 108.872 0 0 3 'crystal symmetry operation' 3_665 -x+y+1,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 54.436 94.285918 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 7 M N N ? 7 R N N # _pdbx_entity_branch.entity_id 5 _pdbx_entity_branch.type 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 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 5 3 2 MAN NAG C1 O1 . O4 HO4 . sing 3 ? 5 4 3 MAN MAN C1 O1 . O3 HO3 . sing 4 ? 5 5 3 MAN MAN C1 O1 . O6 HO6 . sing 5 ? 5 6 1 FUC NAG C1 O1 . O6 HO6 . 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 5 n I NAG 1 I 1 NAG D 301 NAG 5 n I NAG 2 I 2 NAG D 302 NAG 5 n I MAN 3 I 3 MAN D 303 MAN 5 n I MAN 4 I 4 MAN D 304 MAN 5 n I MAN 5 I 5 MAN D 305 MAN 5 n I FUC 6 I 6 FUC D 306 FUC 5 n J NAG 1 J 1 NAG H 301 NAG 5 n J NAG 2 J 2 NAG H 302 NAG 5 n J MAN 3 J 3 MAN H 303 MAN 5 n J MAN 4 J 4 MAN H 304 MAN 5 n J MAN 5 J 5 MAN H 305 MAN 5 n J FUC 6 J 6 FUC H 306 FUC # 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 2 A CYS 2 1_555 A SG CYS 131 A CYS 131 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf2 A SG CYS 122 A CYS 122 1_555 C SG CYS 127 C CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf3 B SG CYS 3 B CYS 3 1_555 B SG CYS 133 B CYS 133 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 C SG CYS 5 C CYS 5 1_555 C SG CYS 136 C CYS 136 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf5 D SG CYS 4 D CYS 4 1_555 D SG CYS 136 D CYS 136 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf6 E SG CYS 2 E CYS 2 1_555 E SG CYS 131 E CYS 131 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf7 E SG CYS 122 E CYS 122 1_555 G SG CYS 127 G CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf8 F SG CYS 3 F CYS 3 1_555 F SG CYS 133 F CYS 133 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf9 G SG CYS 5 G CYS 5 1_555 G SG CYS 136 G CYS 136 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf10 H SG CYS 4 H CYS 4 1_555 H SG CYS 136 H CYS 136 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? covale ? covale1 D ND2 ASN 58 D ASN 58 1_555 I C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.414 ? covale ? covale2 H ND2 ASN 58 H ASN 58 1_555 J C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.414 ? covale ? covale3 I O4 NAG . I NAG 1 1_555 I C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.374 ? covale ? covale4 I O6 NAG . I NAG 1 1_555 I C1 FUC . I FUC 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.382 ? covale ? covale5 I O4 NAG . I NAG 2 1_555 I C1 MAN . I MAN 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.396 ? covale ? covale6 I O3 MAN . I MAN 3 1_555 I C1 MAN . I MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.399 ? covale ? covale7 I O6 MAN . I MAN 3 1_555 I C1 MAN . I MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.384 ? covale ? covale8 J O4 NAG . J NAG 1 1_555 J C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.373 ? covale ? covale9 J O6 NAG . J NAG 1 1_555 J C1 FUC . J FUC 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.382 ? covale ? covale10 J O4 NAG . J NAG 2 1_555 J C1 MAN . J MAN 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.396 ? covale ? covale11 J O3 MAN . J MAN 3 1_555 J C1 MAN . J MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.399 ? covale ? covale12 J O6 MAN . J MAN 3 1_555 J C1 MAN . J MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.385 ? metalc ? metalc1 A NE2 HIS 94 A HIS 94 1_555 K FE HEM . A HEM 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.218 ? metalc ? metalc2 B NE2 HIS 95 B HIS 95 1_555 L FE HEM . B HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.136 ? metalc ? metalc3 B OD1 ASN 106 B ASN 106 1_555 M CA CA . B CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.099 ? metalc ? metalc4 B OE1 GLU 109 B GLU 109 1_555 M CA CA . B CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.067 ? metalc ? metalc5 B OE2 GLU 109 B GLU 109 1_555 M CA CA . B CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.107 ? metalc ? metalc6 B OD1 ASP 135 B ASP 135 1_555 M CA CA . B CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.175 ? metalc ? metalc7 B OD2 ASP 135 B ASP 135 1_555 M CA CA . B CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.198 ? metalc ? metalc8 C NE2 HIS 99 C HIS 99 1_555 N FE HEM . C HEM 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.169 ? metalc ? metalc9 D NE2 HIS 99 D HIS 99 1_555 O FE HEM . D HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.113 ? metalc ? metalc10 E NE2 HIS 94 E HIS 94 1_555 P FE HEM . E HEM 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.218 ? metalc ? metalc11 F NE2 HIS 95 F HIS 95 1_555 Q FE HEM . F HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.136 ? metalc ? metalc12 F OD1 ASN 106 F ASN 106 1_555 R CA CA . F CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.099 ? metalc ? metalc13 F OE1 GLU 109 F GLU 109 1_555 R CA CA . F CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.067 ? metalc ? metalc14 F OE2 GLU 109 F GLU 109 1_555 R CA CA . F CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.107 ? metalc ? metalc15 F OD1 ASP 135 F ASP 135 1_555 R CA CA . F CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.175 ? metalc ? metalc16 F OD2 ASP 135 F ASP 135 1_555 R CA CA . F CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.198 ? metalc ? metalc17 G NE2 HIS 99 G HIS 99 1_555 S FE HEM . G HEM 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.168 ? metalc ? metalc18 H NE2 HIS 99 H HIS 99 1_555 T FE HEM . H HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.114 ? # _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 3WCU _atom_sites.fract_transf_matrix[1][1] 0.009185 _atom_sites.fract_transf_matrix[1][2] 0.005303 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010606 _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] 0.005124 _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 K 6 HEM A 1 200 200 HEM HEM . L 6 HEM B 1 201 200 HEM HEM . M 7 CA B 1 202 401 CA CA . N 6 HEM C 1 200 200 HEM HEM . O 6 HEM D 1 201 200 HEM HEM . P 6 HEM E 1 200 200 HEM HEM . Q 6 HEM F 1 201 200 HEM HEM . R 7 CA F 1 202 401 CA CA . S 6 HEM G 1 200 200 HEM HEM . T 6 HEM H 1 201 200 HEM HEM . # _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 M _atom_site.label_entity_id 7 _atom_site.Cartn_x 36.076 _atom_site.Cartn_y 23.057 _atom_site.Cartn_z -49.169 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 67.81 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 202 _atom_site.auth_asym_id B _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 50 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 1 #