data_2JJ8 # _model_server_result.job_id 3CzMs2z87x0oLa9iybsP7A _model_server_result.datetime_utc '2024-11-13 19:12:36' _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 2jj8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":1211}' # _entry.id 2JJ8 # _exptl.entry_id 2JJ8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 267.241 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "3'-azido-3'-deoxythymidine" _entity.pdbx_number_of_molecules 4 _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 2JJ8 _cell.length_a 140.031 _cell.length_b 111.868 _cell.length_c 71.1 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2JJ8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 software_defined_assembly 1 PISA dimeric 2 software_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,E,F,G,H,I,J,Q,R 1 1 C,D,K,L,M,N,O,P,S,T 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 ? 3 G N N ? 3 J N N ? 3 M N N ? 3 P N N # _chem_comp.formula 'C10 H13 N5 O4' _chem_comp.formula_weight 267.241 _chem_comp.id AZZ _chem_comp.mon_nstd_flag . _chem_comp.name "3'-azido-3'-deoxythymidine" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms Azidothymidine;Zidovudine # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag O5' C5' AZZ sing 70 n n C5' C4' AZZ sing 71 n n C4' O4' AZZ sing 72 n n C4' C3' AZZ sing 73 n n O4' C1' AZZ sing 74 n n C3' N3' AZZ sing 75 n n C3' C2' AZZ sing 76 n n N3' N4' AZZ doub 77 n n N4' N5' AZZ doub 78 n n C2' C1' AZZ sing 79 n n C1' N1 AZZ sing 80 n n N1 C2 AZZ sing 81 n n N1 C6 AZZ sing 82 n n C2 O2 AZZ doub 83 n n C2 N3 AZZ sing 84 n n N3 C4 AZZ sing 85 n n C4 O4 AZZ doub 86 n n C4 C5 AZZ sing 87 n n C5 C5A AZZ sing 88 n n C5 C6 AZZ doub 89 n n O5' HO5' AZZ sing 90 n n C5' H5' AZZ sing 91 n n C5' "H5'A" AZZ sing 92 n n C4' H4' AZZ sing 93 n n C3' H3' AZZ sing 94 n n C2' H2' AZZ sing 95 n n C2' "H2'A" AZZ sing 96 n n C1' H1' AZZ sing 97 n n N3 HN3 AZZ sing 98 n n C5A H5A AZZ sing 99 n n C5A H5AA AZZ sing 100 n n C5A H5AB AZZ sing 101 n n C6 H6 AZZ sing 102 n n # _atom_sites.entry_id 2JJ8 _atom_sites.fract_transf_matrix[1][1] 0.007141 _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] 0.008939 _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] 0.014065 _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 2 SO4 A 1 1209 1209 SO4 SO4 . F 2 SO4 A 1 1210 1210 SO4 SO4 . G 3 AZZ A 1 1211 1211 AZZ AZZ . H 2 SO4 B 1 1209 1209 SO4 SO4 . I 2 SO4 B 1 1210 1210 SO4 SO4 . J 3 AZZ B 1 1211 1211 AZZ AZZ . K 2 SO4 C 1 1209 1209 SO4 SO4 . L 2 SO4 C 1 1210 1210 SO4 SO4 . M 3 AZZ C 1 1211 1211 AZZ AZZ . N 2 SO4 D 1 1209 1209 SO4 SO4 . O 2 SO4 D 1 1210 1210 SO4 SO4 . P 3 AZZ D 1 1211 1211 AZZ AZZ . Q 4 HOH A 1 2001 2001 HOH HOH . Q 4 HOH A 2 2002 2002 HOH HOH . Q 4 HOH A 3 2003 2003 HOH HOH . Q 4 HOH A 4 2004 2004 HOH HOH . Q 4 HOH A 5 2005 2005 HOH HOH . Q 4 HOH A 6 2006 2006 HOH HOH . Q 4 HOH A 7 2007 2007 HOH HOH . Q 4 HOH A 8 2008 2008 HOH HOH . Q 4 HOH A 9 2009 2009 HOH HOH . Q 4 HOH A 10 2010 2010 HOH HOH . Q 4 HOH A 11 2011 2011 HOH HOH . Q 4 HOH A 12 2012 2012 HOH HOH . R 4 HOH B 1 2001 2001 HOH HOH . R 4 HOH B 2 2002 2002 HOH HOH . R 4 HOH B 3 2003 2003 HOH HOH . R 4 HOH B 4 2004 2004 HOH HOH . R 4 HOH B 5 2005 2005 HOH HOH . R 4 HOH B 6 2006 2006 HOH HOH . R 4 HOH B 7 2007 2007 HOH HOH . R 4 HOH B 8 2008 2008 HOH HOH . R 4 HOH B 9 2009 2009 HOH HOH . R 4 HOH B 10 2010 2010 HOH HOH . R 4 HOH B 11 2011 2011 HOH HOH . R 4 HOH B 12 2012 2012 HOH HOH . R 4 HOH B 13 2013 2013 HOH HOH . R 4 HOH B 14 2014 2014 HOH HOH . R 4 HOH B 15 2015 2015 HOH HOH . S 4 HOH C 1 2001 2001 HOH HOH . S 4 HOH C 2 2002 2002 HOH HOH . S 4 HOH C 3 2003 2003 HOH HOH . S 4 HOH C 4 2004 2004 HOH HOH . S 4 HOH C 5 2005 2005 HOH HOH . S 4 HOH C 6 2006 2006 HOH HOH . S 4 HOH C 7 2007 2007 HOH HOH . S 4 HOH C 8 2008 2008 HOH HOH . S 4 HOH C 9 2009 2009 HOH HOH . S 4 HOH C 10 2010 2010 HOH HOH . S 4 HOH C 11 2011 2011 HOH HOH . S 4 HOH C 12 2012 2012 HOH HOH . S 4 HOH C 13 2013 2013 HOH HOH . S 4 HOH C 14 2014 2014 HOH HOH . T 4 HOH D 1 2001 2001 HOH HOH . T 4 HOH D 2 2002 2002 HOH HOH . T 4 HOH D 3 2003 2003 HOH HOH . T 4 HOH D 4 2004 2004 HOH HOH . T 4 HOH D 5 2005 2005 HOH HOH . T 4 HOH D 6 2006 2006 HOH HOH . T 4 HOH D 7 2007 2007 HOH HOH . T 4 HOH D 8 2008 2008 HOH HOH . T 4 HOH D 9 2009 2009 HOH HOH . T 4 HOH D 10 2010 2010 HOH HOH . T 4 HOH D 11 2011 2011 HOH HOH . T 4 HOH D 12 2012 2012 HOH HOH . T 4 HOH D 13 2013 2013 HOH HOH . T 4 HOH D 14 2014 2014 HOH HOH . T 4 HOH D 15 2015 2015 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 O O5' AZZ . . . M 3 43.663 -24.327 -36.071 1 42.94 ? O5' AZZ 1211 C 1 HETATM 2 C C5' AZZ . . . M 3 42.84 -23.761 -37.107 1 40.58 ? C5' AZZ 1211 C 1 HETATM 3 C C4' AZZ . . . M 3 43.721 -23.546 -38.33 1 37.85 ? C4' AZZ 1211 C 1 HETATM 4 O O4' AZZ . . . M 3 44.633 -22.469 -38.132 1 35.26 ? O4' AZZ 1211 C 1 HETATM 5 C C3' AZZ . . . M 3 44.561 -24.788 -38.542 1 37.86 ? C3' AZZ 1211 C 1 HETATM 6 N N3' AZZ . . . M 3 44.158 -25.243 -39.844 1 24.16 ? N3' AZZ 1211 C 1 HETATM 7 N N4' AZZ . . . M 3 43.24 -25.999 -40.225 1 35.18 ? N4' AZZ 1211 C 1 HETATM 8 N N5' AZZ . . . M 3 42.439 -26.658 -40.556 1 41.81 ? N5' AZZ 1211 C 1 HETATM 9 C C2' AZZ . . . M 3 46.03 -24.375 -38.481 1 36 ? C2' AZZ 1211 C 1 HETATM 10 C C1' AZZ . . . M 3 45.989 -22.848 -38.443 1 32.1 ? C1' AZZ 1211 C 1 HETATM 11 N N1 AZZ . . . M 3 46.95 -22.148 -37.547 1 29.39 ? N1 AZZ 1211 C 1 HETATM 12 C C2 AZZ . . . M 3 48.019 -21.42 -38.131 1 29.13 ? C2 AZZ 1211 C 1 HETATM 13 O O2 AZZ . . . M 3 48.152 -21.407 -39.38 1 29.52 ? O2 AZZ 1211 C 1 HETATM 14 N N3 AZZ . . . M 3 48.913 -20.733 -37.407 1 28.72 ? N3 AZZ 1211 C 1 HETATM 15 C C4 AZZ . . . M 3 48.839 -20.708 -36.078 1 29.74 ? C4 AZZ 1211 C 1 HETATM 16 O O4 AZZ . . . M 3 49.677 -20.058 -35.403 1 29.1 ? O4 AZZ 1211 C 1 HETATM 17 C C5 AZZ . . . M 3 47.732 -21.455 -35.424 1 29.44 ? C5 AZZ 1211 C 1 HETATM 18 C C5A AZZ . . . M 3 47.624 -21.439 -33.922 1 28.47 ? C5A AZZ 1211 C 1 HETATM 19 C C6 AZZ . . . M 3 46.808 -22.145 -36.218 1 28.62 ? C6 AZZ 1211 C 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 288 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 19 #