data_4CBK # _model_server_result.job_id 2khCYJ_-byzNFMu59BwadQ _model_server_result.datetime_utc '2024-10-24 05:19:06' _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 4cbk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"V","auth_seq_id":101}' # _entry.id 4CBK # _exptl.entry_id 4CBK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM ION' _entity.pdbx_number_of_molecules 10 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 105.38 _cell.angle_gamma 90 _cell.entry_id 4CBK _cell.length_a 73.79 _cell.length_b 96.75 _cell.length_c 118.33 _cell.Z_PDB 26 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4CBK _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tridecameric _pdbx_struct_assembly.oligomeric_count 13 _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,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA,VA,WA,XA _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 ? 3 O N N ? 3 R N N ? 3 T N N ? 3 V N N ? 3 X N N ? 3 Z N N ? 3 BA N N ? 3 DA N N ? 3 GA N N ? 3 IA 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 covale ? covale1 A C FME 1 A FME 1 1_555 A N ALA 2 A ALA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale2 B C FME 1 B FME 1 1_555 B N ALA 2 B ALA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale3 C C FME 1 C FME 1 1_555 C N ALA 2 C ALA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale4 D C FME 1 D FME 1 1_555 D N ALA 2 D ALA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale5 E C FME 1 E FME 1 1_555 E N ALA 2 E ALA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale6 F C FME 1 F FME 1 1_555 F N ALA 2 F ALA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale7 G C FME 1 G FME 1 1_555 G N ALA 2 G ALA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale8 H C FME 1 H FME 1 1_555 H N ALA 2 H ALA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale9 I C FME 1 I FME 1 1_555 I N ALA 2 I ALA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale10 J C FME 1 J FME 1 1_555 J N ALA 2 J ALA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale11 K C FME 1 K FME 1 1_555 K N ALA 2 K ALA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale12 L C FME 1 L FME 1 1_555 L N ALA 2 L ALA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale13 M C FME 1 M FME 1 1_555 M N ALA 2 M ALA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? metalc ? metalc1 B OE1 GLU 30 B GLU 30 1_555 O NA NA . B NA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.546 ? metalc ? metalc2 O NA NA . B NA 101 1_555 MA O HOH . B HOH 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.079 ? metalc ? metalc3 O NA NA . B NA 101 1_555 C OE2 GLU 30 C GLU 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.635 ? metalc ? metalc4 C OE1 GLU 30 C GLU 30 1_555 R NA NA . C NA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.495 ? metalc ? metalc5 R NA NA . C NA 101 1_555 NA O HOH . C HOH 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.828 ? metalc ? metalc6 R NA NA . C NA 101 1_555 D OE2 GLU 30 D GLU 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.784 ? metalc ? metalc7 D OE1 GLU 30 D GLU 30 1_555 T NA NA . D NA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.459 ? metalc ? metalc8 T NA NA . D NA 101 1_555 OA O HOH . D HOH 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.706 ? metalc ? metalc9 T NA NA . D NA 101 1_555 E OE2 GLU 30 E GLU 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.549 ? metalc ? metalc10 E OE1 GLU 30 E GLU 30 1_555 V NA NA . E NA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.812 ? metalc ? metalc11 V NA NA . E NA 101 1_555 PA O HOH . E HOH 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.719 ? metalc ? metalc12 V NA NA . E NA 101 1_555 F OE2 GLU 30 F GLU 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.493 ? metalc ? metalc13 F OE1 GLU 30 F GLU 30 1_555 X NA NA . F NA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.693 ? metalc ? metalc14 X NA NA . F NA 101 1_555 QA O HOH . F HOH 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.021 ? metalc ? metalc15 X NA NA . F NA 101 1_555 G OE2 GLU 30 G GLU 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.517 ? metalc ? metalc16 G OE1 GLU 30 G GLU 30 1_555 Z NA NA . G NA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.505 ? metalc ? metalc17 Z NA NA . G NA 101 1_555 RA O HOH . G HOH 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.886 ? metalc ? metalc18 H OE1 GLU 30 H GLU 30 1_555 BA NA NA . H NA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.852 ? metalc ? metalc19 BA NA NA . H NA 101 1_555 SA O HOH . H HOH 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.96 ? metalc ? metalc20 BA NA NA . H NA 101 1_555 I OE2 GLU 30 I GLU 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.027 ? metalc ? metalc21 I OE1 GLU 30 I GLU 30 1_555 DA NA NA . I NA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.686 ? metalc ? metalc22 DA NA NA . I NA 101 1_555 TA O HOH . I HOH 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.703 ? metalc ? metalc23 DA NA NA . I NA 101 1_555 J OE2 GLU 30 J GLU 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.691 ? metalc ? metalc24 K OE1 GLU 30 K GLU 30 1_555 GA NA NA . K NA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.691 ? metalc ? metalc25 GA NA NA . K NA 101 1_555 VA O HOH . K HOH 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.809 ? metalc ? metalc26 GA NA NA . K NA 101 1_555 L OE2 GLU 30 L GLU 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.548 ? metalc ? metalc27 L OE1 GLU 30 L GLU 30 1_555 IA NA NA . L NA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.495 ? metalc ? metalc28 IA NA NA . L NA 101 1_555 WA O HOH . L HOH 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.835 ? metalc ? metalc29 IA NA NA . L NA 101 1_555 M OE2 GLU 30 M GLU 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.507 ? # _chem_comp.formula 'Na 1' _chem_comp.formula_weight 22.99 _chem_comp.id NA _chem_comp.mon_nstd_flag . _chem_comp.name 'SODIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 4CBK _atom_sites.fract_transf_matrix[1][1] 0.013552 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003728 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010336 _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] 0.008765 _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 N 2 DPV A 1 200 200 DPV DPV . O 3 NA B 1 101 101 NA NA . P 2 DPV B 1 200 200 DPV DPV . Q 4 LMT B 1 1000 1000 LMT LMT . R 3 NA C 1 101 101 NA NA . S 2 DPV C 1 200 200 DPV DPV . T 3 NA D 1 101 101 NA NA . U 2 DPV D 1 200 200 DPV DPV . V 3 NA E 1 101 101 NA NA . W 2 DPV E 1 200 200 DPV DPV . X 3 NA F 1 101 101 NA NA . Y 2 DPV F 1 200 200 DPV DPV . Z 3 NA G 1 101 101 NA NA . AA 2 DPV G 1 200 200 DPV DPV . BA 3 NA H 1 101 101 NA NA . CA 2 DPV H 1 200 200 DPV DPV . DA 3 NA I 1 101 101 NA NA . EA 2 DPV I 1 200 200 DPV DPV . FA 2 DPV J 1 200 200 DPV DPV . GA 3 NA K 1 101 101 NA NA . HA 2 DPV K 1 200 200 DPV DPV . IA 3 NA L 1 101 101 NA NA . JA 2 DPV L 1 200 200 DPV DPV . KA 2 DPV M 1 200 200 DPV DPV . LA 5 HOH A 1 2001 2001 HOH HOH . LA 5 HOH A 2 2002 2002 HOH HOH . LA 5 HOH A 3 2003 2003 HOH HOH . LA 5 HOH A 4 2004 2004 HOH HOH . LA 5 HOH A 5 2005 2005 HOH HOH . LA 5 HOH A 6 2006 2006 HOH HOH . LA 5 HOH A 7 2007 2007 HOH HOH . MA 5 HOH B 1 2001 2001 HOH HOH . MA 5 HOH B 2 2002 2002 HOH HOH . MA 5 HOH B 3 2003 2003 HOH HOH . MA 5 HOH B 4 2004 2004 HOH HOH . MA 5 HOH B 5 2005 2005 HOH HOH . MA 5 HOH B 6 2006 2006 HOH HOH . NA 5 HOH C 1 2001 2001 HOH HOH . NA 5 HOH C 2 2002 2002 HOH HOH . NA 5 HOH C 3 2003 2003 HOH HOH . NA 5 HOH C 4 2004 2004 HOH HOH . NA 5 HOH C 5 2005 2005 HOH HOH . NA 5 HOH C 6 2006 2006 HOH HOH . OA 5 HOH D 1 2001 2001 HOH HOH . OA 5 HOH D 2 2002 2002 HOH HOH . OA 5 HOH D 3 2003 2003 HOH HOH . PA 5 HOH E 1 2001 2001 HOH HOH . PA 5 HOH E 2 2002 2002 HOH HOH . PA 5 HOH E 3 2003 2003 HOH HOH . PA 5 HOH E 4 2004 2004 HOH HOH . PA 5 HOH E 5 2005 2005 HOH HOH . PA 5 HOH E 6 2006 2006 HOH HOH . PA 5 HOH E 7 2007 2007 HOH HOH . PA 5 HOH E 8 2008 2008 HOH HOH . QA 5 HOH F 1 2001 2001 HOH HOH . QA 5 HOH F 2 2002 2002 HOH HOH . QA 5 HOH F 3 2003 2003 HOH HOH . QA 5 HOH F 4 2004 2004 HOH HOH . QA 5 HOH F 5 2005 2005 HOH HOH . QA 5 HOH F 6 2006 2006 HOH HOH . QA 5 HOH F 7 2007 2007 HOH HOH . RA 5 HOH G 1 2001 2001 HOH HOH . RA 5 HOH G 2 2002 2002 HOH HOH . RA 5 HOH G 3 2003 2003 HOH HOH . RA 5 HOH G 4 2004 2004 HOH HOH . RA 5 HOH G 5 2005 2005 HOH HOH . RA 5 HOH G 6 2006 2006 HOH HOH . SA 5 HOH H 1 2001 2001 HOH HOH . SA 5 HOH H 2 2002 2002 HOH HOH . SA 5 HOH H 3 2003 2003 HOH HOH . SA 5 HOH H 4 2004 2004 HOH HOH . SA 5 HOH H 5 2005 2005 HOH HOH . SA 5 HOH H 6 2006 2006 HOH HOH . TA 5 HOH I 1 2001 2001 HOH HOH . TA 5 HOH I 2 2002 2002 HOH HOH . TA 5 HOH I 3 2003 2003 HOH HOH . TA 5 HOH I 4 2004 2004 HOH HOH . TA 5 HOH I 5 2005 2005 HOH HOH . TA 5 HOH I 6 2006 2006 HOH HOH . UA 5 HOH J 1 2001 2001 HOH HOH . UA 5 HOH J 2 2002 2002 HOH HOH . UA 5 HOH J 3 2003 2003 HOH HOH . UA 5 HOH J 4 2004 2004 HOH HOH . UA 5 HOH J 5 2005 2005 HOH HOH . UA 5 HOH J 6 2006 2006 HOH HOH . VA 5 HOH K 1 2001 2001 HOH HOH . VA 5 HOH K 2 2002 2002 HOH HOH . VA 5 HOH K 3 2003 2003 HOH HOH . VA 5 HOH K 4 2004 2004 HOH HOH . VA 5 HOH K 5 2005 2005 HOH HOH . VA 5 HOH K 6 2006 2006 HOH HOH . VA 5 HOH K 7 2007 2007 HOH HOH . WA 5 HOH L 1 2001 2001 HOH HOH . WA 5 HOH L 2 2002 2002 HOH HOH . WA 5 HOH L 3 2003 2003 HOH HOH . XA 5 HOH M 1 2001 2001 HOH HOH . XA 5 HOH M 2 2002 2002 HOH HOH . XA 5 HOH M 3 2003 2003 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol NA _atom_site.label_atom_id NA _atom_site.label_comp_id NA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id V _atom_site.label_entity_id 3 _atom_site.Cartn_x 20.972 _atom_site.Cartn_y -0.869 _atom_site.Cartn_z 41.418 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 58.46 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 101 _atom_site.auth_asym_id E _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 31 _model_server_stats.query_time_ms 313 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 1 #