data_2JBK # _model_server_result.job_id ZU83OGg2GyrD-VT8QWW2xw _model_server_result.datetime_utc '2024-11-26 16:21:28' _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 2jbk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":803}' # _entry.id 2JBK # _exptl.entry_id 2JBK _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 1 _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 2JBK _cell.length_a 103.144 _cell.length_b 130.758 _cell.length_c 159.992 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2JBK _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details PQS _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details 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 1,2 # 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_565 -x,-y+1,z -1 0 0 0 -1 0 0 0 1 0 130.758 0 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id H _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 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 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing 4 ? 3 4 3 MAN BMA C1 O1 . O3 HO3 . 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 B NAG 1 B 1 NAG A 1751 NAG 2 n B NAG 2 B 2 NAG A 1752 NAG 2 n C NAG 1 C 1 NAG A 1754 NAG 2 n C NAG 2 C 2 NAG A 1755 NAG 2 n D NAG 1 D 1 NAG A 1758 NAG 2 n D NAG 2 D 2 NAG A 1759 NAG 3 n E NAG 1 E 1 NAG A 1760 NAG 3 n E NAG 2 E 2 NAG A 1761 NAG 3 n E BMA 3 E 3 BMA A 1762 BMA 3 n E MAN 4 E 4 MAN A 1763 MAN # 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 ND2 ASN 33 A ASN 76 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale2 A ND2 ASN 78 A ASN 121 1_555 J C1 NAG . A NAG 1753 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.489 ? covale ? covale3 A ND2 ASN 97 A ASN 140 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale4 A ND2 ASN 152 A ASN 195 1_555 K C1 NAG . A NAG 1756 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.491 ? covale ? covale5 A ND2 ASN 416 A ASN 459 1_555 L C1 NAG . A NAG 1757 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.472 ? covale ? covale6 A ND2 ASN 433 A ASN 476 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale7 A ND2 ASN 595 A ASN 638 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale8 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale9 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.477 ? covale ? covale10 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.426 ? covale ? covale11 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.467 ? covale ? covale12 E O4 NAG . E NAG 2 1_555 E C1 BMA . E BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.466 ? covale ? covale13 E O3 BMA . E BMA 3 1_555 E C1 MAN . E MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? metalc ? metalc1 A O THR 226 A THR 269 1_555 H CA CA . A CA 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.264 ? metalc ? metalc2 A OG1 THR 226 A THR 269 1_555 H CA CA . A CA 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.461 ? metalc ? metalc3 A O TYR 229 A TYR 272 1_555 H CA CA . A CA 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.332 ? metalc ? metalc4 A NE2 HIS 334 A HIS 377 1_555 G ZN ZN . A ZN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.792 ? metalc ? metalc5 A OD2 ASP 344 A ASP 387 1_555 F ZN ZN . A ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.938 ? metalc ? metalc6 A OD1 ASP 344 A ASP 387 1_555 G ZN ZN . A ZN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.966 ? metalc ? metalc7 A OE2 GLU 382 A GLU 425 1_555 F ZN ZN . A ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.868 ? metalc ? metalc8 A OE1 GLU 390 A GLU 433 1_555 H CA CA . A CA 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.403 ? metalc ? metalc9 A OE2 GLU 390 A GLU 433 1_555 H CA CA . A CA 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? metalc ? metalc10 A OE2 GLU 393 A GLU 436 1_555 H CA CA . A CA 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.441 ? metalc ? metalc11 A OD2 ASP 410 A ASP 453 1_555 G ZN ZN . A ZN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.861 ? metalc ? metalc12 A NE2 HIS 510 A HIS 553 1_555 F ZN ZN . A ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.123 ? metalc ? metalc13 F ZN ZN . A ZN 801 1_555 N O HOH . A HOH 2018 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.981 ? metalc ? metalc14 G ZN ZN . A ZN 802 1_555 N O HOH . A HOH 2018 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.462 ? # _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 2JBK _atom_sites.fract_transf_matrix[1][1] 0.009695 _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] 0.007648 _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] 0.00625 _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 F 4 ZN A 1 801 801 ZN ZN . G 4 ZN A 1 802 802 ZN ZN . H 5 CA A 1 803 803 CA CA . I 6 CL A 1 804 804 CL CL . J 7 NAG A 1 1753 1753 NAG NAG . K 7 NAG A 1 1756 1756 NAG NAG . L 7 NAG A 1 1757 1757 NAG NAG . M 8 QUS A 1 1764 1764 QUS QUS . N 9 HOH A 1 2001 2001 HOH HOH . N 9 HOH A 2 2002 2002 HOH HOH . N 9 HOH A 3 2003 2003 HOH HOH . N 9 HOH A 4 2004 2004 HOH HOH . N 9 HOH A 5 2005 2005 HOH HOH . N 9 HOH A 6 2006 2006 HOH HOH . N 9 HOH A 7 2007 2007 HOH HOH . N 9 HOH A 8 2008 2008 HOH HOH . N 9 HOH A 9 2009 2009 HOH HOH . N 9 HOH A 10 2010 2010 HOH HOH . N 9 HOH A 11 2011 2011 HOH HOH . N 9 HOH A 12 2012 2012 HOH HOH . N 9 HOH A 13 2013 2013 HOH HOH . N 9 HOH A 14 2014 2014 HOH HOH . N 9 HOH A 15 2015 2015 HOH HOH . N 9 HOH A 16 2016 2016 HOH HOH . N 9 HOH A 17 2017 2017 HOH HOH . N 9 HOH A 18 2018 2018 HOH HOH . N 9 HOH A 19 2019 2019 HOH HOH . N 9 HOH A 20 2020 2020 HOH HOH . N 9 HOH A 21 2021 2021 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 H _atom_site.label_entity_id 5 _atom_site.Cartn_x -0.579 _atom_site.Cartn_y 50.009 _atom_site.Cartn_z 41.796 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 35 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 803 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 474 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 1 #