data_1dep_residue save_MolProbity _Software.Sf_category software _Software.Sf_framecode MolProbity _Software.Entry_ID ? _Software.ID 1 _Software.Name MolProbity _Software.Version 4.0 _Software.Details . save_ save_CYRANGE _Software.Sf_category software _Software.Sf_framecode CYRANGE _Software.Entry_ID ? _Software.ID 2 _Software.Name CYRANGE _Software.Version 2.0 _Software.Details . save_ save_Structure_validation_residue _Structure_validation_residue.Sf_category structure_validation _Structure_validation_residue.Sf_framecode Structure_validation_residue _Structure_validation_residue.Entry_ID ? _Structure_validation_residue.List_ID 1 _Structure_validation_residue.PDB_accession_code 1dep _Structure_validation_residue.Date_analyzed 2016-10-06 loop_ _Residue_analysis_software.Software_ID _Residue_analysis_software.Software_label _Residue_analysis_software.Method_ID _Residue_analysis_software.Method_label _Residue_analysis_software.Entry_ID _Residue_analysis_software.Structure_validation_oneline_list_ID 1 MolProbity . . ? 1 2 CYRANGE . . ? 1 stop_ loop_ _Residue_analysis.ID _Residue_analysis.PDB_model_num _Residue_analysis.Hydrogen_positions _Residue_analysis.MolProbity_flips _Residue_analysis.Cyrange_core_flag _Residue_analysis.Two_letter_chain_ID _Residue_analysis.PDB_strand_ID _Residue_analysis.PDB_residue_no _Residue_analysis.PDB_ins_code _Residue_analysis.PDB_residue_name _Residue_analysis.Assembly_ID _Residue_analysis.Entity_assembly_ID _Residue_analysis.Entity_ID _Residue_analysis.Comp_ID _Residue_analysis.Comp_index_ID _Residue_analysis.Clash_value _Residue_analysis.Clash_source_PDB_atom_name _Residue_analysis.Clash_destination_PDB_atom_name _Residue_analysis.Clash_destination_PDB_strand_ID _Residue_analysis.Clash_destination_PDB_residue_no _Residue_analysis.Clash_destination_PDB_ins_code _Residue_analysis.Clash_destination_PDB_residue_name _Residue_analysis.Cbeta_deviation_value _Residue_analysis.Rotamer_score _Residue_analysis.Rotamer_name _Residue_analysis.Ramachandran_phi _Residue_analysis.Ramachandran_psi _Residue_analysis.Ramachandran_score _Residue_analysis.Ramachandran_evaluation _Residue_analysis.Ramachandran_type _Residue_analysis.Bond_outlier_count _Residue_analysis.Worst_bond _Residue_analysis.Worst_bond_value _Residue_analysis.Worst_bond_sigma _Residue_analysis.Angle_outlier_count _Residue_analysis.Worst_angle _Residue_analysis.Worst_angle_value _Residue_analysis.Worst_angle_sigma _Residue_analysis.RNA_phosphate_perpendicular_outlier _Residue_analysis.RNA_suitness_score _Residue_analysis.RNA_suite_conformer _Residue_analysis.RNA_suite_triage _Residue_analysis.Max_b_factor _Residue_analysis.Tau_angle _Residue_analysis.Omega_dihedral _Residue_analysis.Disulfide_chi1 _Residue_analysis.Disulfide_chi2 _Residue_analysis.Disulfide_chi3 _Residue_analysis.Disulfide_ss_angle _Residue_analysis.Disulfide_ss _Residue_analysis.Disulfide_ss_angle_prime _Residue_analysis.Disulfide_chi2prime _Residue_analysis.Disulfide_chi1prime _Residue_analysis.Outlier_count_separate_geometry _Residue_analysis.Outlier_count _Residue_analysis.Entry_ID _Residue_analysis.Structure_validation_residue_list_ID . 001 nuclear orig full ' A' A ' 1' ' ' ARG . . . . . 0.404 ' HA ' ' NE ' ' A' ' 1' ' ' ARG . 0.0 OUTLIER . . . . . 0 C--O 1.263 1.806 0 N-CA-C 113.143 0.794 . . . . 0.0 113.143 . . . . . . . . . 2 2 . 1 . 001 nuclear orig full ' A' A ' 2' ' ' SER . . . . . 0.589 ' HB2' ' HD2' ' A' ' 5' ' ' PHE . 86.0 p -125.82 70.11 65.71 Favored Pre-proline 0 C--O 1.258 1.545 0 N-CA-C 116.736 2.124 . . . . 0.0 116.736 176.186 . . . . . . . . 2 2 . 1 . 001 nuclear orig full ' A' A ' 3' ' ' PRO . . . . . . . . . . . . . 3.1 Cg_endo -73.2 -39.5 2.13 Favored 'Trans proline' 0 C--O 1.263 1.75 0 C-N-CA 121.081 1.187 . . . . 0.0 110.748 -174.243 . . . . . . . . 1 1 . 1 . 001 nuclear orig full ' A' A ' 4' ' ' ASP . . . . . . . . . . . . . 0.8 OUTLIER -57.92 -43.5 86.26 Favored 'General case' 0 C--O 1.258 1.515 0 O-C-N 125.631 1.832 . . . . 0.0 111.521 -178.914 . . . . . . . . 2 2 . 1 . 001 nuclear orig full ' A' A ' 5' ' ' PHE . . . . . 0.589 ' HD2' ' HB2' ' A' ' 2' ' ' SER . 20.5 m-85 -63.23 -42.37 99.21 Favored 'General case' 0 C--O 1.261 1.704 0 O-C-N 125.677 1.86 . . . . 0.0 111.366 179.739 . . . . . . . . 2 2 . 1 . 001 nuclear orig full ' A' A ' 6' ' ' ARG . . . . . . . . . . . . . 49.0 mtp180 -63.97 -40.36 96.22 Favored 'General case' 0 C--O 1.258 1.551 0 O-C-N 125.988 2.055 . . . . 0.0 110.785 177.579 . . . . . . . . 1 1 . 1 . 001 nuclear orig full ' A' A ' 7' ' ' LYS . . . . . . . . . . . . . 0.0 OUTLIER -64.07 -42.77 96.87 Favored 'General case' 0 C--O 1.244 0.789 0 O-C-N 127.276 2.86 . . . . 0.0 110.485 179.072 . . . . . . . . 2 2 . 1 . 001 nuclear orig full ' A' A ' 8' ' ' ALA . . . . . . . . . . . . . . . -65.62 -38.42 89.37 Favored 'General case' 0 C--N 1.312 -1.053 0 O-C-N 126.793 2.558 . . . . 0.0 108.928 178.765 . . . . . . . . 1 1 . 1 . 001 nuclear orig full ' A' A ' 9' ' ' PHE . . . . . 0.428 ' O ' ' HG ' ' A' ' 13' ' ' LEU . 23.8 t80 -62.01 -39.28 91.72 Favored 'General case' 0 C--N 1.301 -1.509 0 C-N-CA 118.109 -1.436 . . . . 0.0 112.295 173.112 . . . . . . . . 2 2 . 1 . 001 nuclear orig full ' A' A ' 10' ' ' LYS . . . . . . . . . . . . . 26.6 tptt -60.06 -43.76 95.17 Favored 'General case' 0 C--O 1.261 1.672 0 CA-C-N 114.757 -1.111 . . . . 0.0 112.999 171.815 . . . . . . . . 1 1 . 1 . 001 nuclear orig full ' A' A ' 11' ' ' ARG . . . . . 0.407 ' O ' ' HD2' ' A' ' 15' ' ' PHE . 0.1 OUTLIER -63.62 -44.45 93.89 Favored 'General case' 0 C--N 1.301 -1.527 0 C-N-CA 126.952 2.101 . . . . 0.0 111.137 178.754 . . . . . . . . 3 3 . 1 . 001 nuclear orig full ' A' A ' 12' ' ' LEU . . . . . . . . . . . . . 3.3 mm? -66.3 -39.51 89.39 Favored 'General case' 0 C--N 1.296 -1.753 0 O-C-N 125.684 1.865 . . . . 0.0 109.261 -178.09 . . . . . . . . 1 1 . 1 . 001 nuclear orig full ' A' A ' 13' ' ' LEU . . . . . 0.428 ' HG ' ' O ' ' A' ' 9' ' ' PHE . 65.5 mt -61.85 -40.01 93.87 Favored 'General case' 0 C--O 1.26 1.615 0 O-C-N 126.006 2.066 . . . . 0.0 110.805 177.163 . . . . . . . . 2 2 . 1 . 001 nuclear orig full ' A' A ' 14' ' ' CYS . . . . . . . . . . . . . 0.3 OUTLIER -66.8 -39.92 87.93 Favored 'General case' 0 C--O 1.261 1.696 0 O-C-N 125.314 1.634 . . . . 0.0 112.857 -179.98 . . . . . . . . 2 2 . 1 . 001 nuclear orig full ' A' A ' 15' ' ' PHE . . . . . 0.407 ' HD2' ' O ' ' A' ' 11' ' ' ARG . 57.0 m-85 . . . . . 0 C--O 1.26 1.63 0 O-C-N 125.158 1.536 . . . . 0.0 112.929 175.606 . . . . . . . . 1 1 . 1 . 001 nuclear build full ' A' A ' 1' ' ' ARG . . . . . . . . . . . . . 0.0 OUTLIER . . . . . 0 C--O 1.263 1.806 0 N-CA-C 113.143 0.794 . . . . 0.0 113.143 . . . . . . . . . 1 1 . 1 . 001 nuclear build full ' A' A ' 2' ' ' SER . . . . . 0.602 ' HB2' ' HD2' ' A' ' 5' ' ' PHE . 86.0 p -125.82 70.11 65.71 Favored Pre-proline 0 C--O 1.258 1.545 0 N-CA-C 116.736 2.124 . . . . 0.0 116.736 176.186 . . . . . . . . 2 2 . 1 . 001 nuclear build full ' A' A ' 3' ' ' PRO . . . . . . . . . . . . . 3.1 Cg_endo -73.2 -39.5 2.13 Favored 'Trans proline' 0 C--O 1.263 1.75 0 C-N-CA 121.081 1.187 . . . . 0.0 110.748 -174.243 . . . . . . . . 1 1 . 1 . 001 nuclear build full ' A' A ' 4' ' ' ASP . . . . . . . . . . . . . 0.8 OUTLIER -57.92 -43.5 86.26 Favored 'General case' 0 C--O 1.258 1.515 0 O-C-N 125.631 1.832 . . . . 0.0 111.521 -178.914 . . . . . . . . 2 2 . 1 . 001 nuclear build full ' A' A ' 5' ' ' PHE . . . . . 0.602 ' HD2' ' HB2' ' A' ' 2' ' ' SER . 20.5 m-85 -63.23 -42.37 99.21 Favored 'General case' 0 C--O 1.261 1.704 0 O-C-N 125.677 1.86 . . . . 0.0 111.366 179.739 . . . . . . . . 2 2 . 1 . 001 nuclear build full ' A' A ' 6' ' ' ARG . . . . . . . . . . . . . 49.0 mtp180 -63.97 -40.36 96.22 Favored 'General case' 0 C--O 1.258 1.551 0 O-C-N 125.988 2.055 . . . . 0.0 110.785 177.579 . . . . . . . . 1 1 . 1 . 001 nuclear build full ' A' A ' 7' ' ' LYS . . . . . . . . . . . . . 0.0 OUTLIER -64.07 -42.77 96.87 Favored 'General case' 0 C--O 1.244 0.789 0 O-C-N 127.276 2.86 . . . . 0.0 110.485 179.072 . . . . . . . . 2 2 . 1 . 001 nuclear build full ' A' A ' 8' ' ' ALA . . . . . . . . . . . . . . . -65.62 -38.42 89.37 Favored 'General case' 0 C--N 1.312 -1.053 0 O-C-N 126.793 2.558 . . . . 0.0 108.928 178.765 . . . . . . . . 1 1 . 1 . 001 nuclear build full ' A' A ' 9' ' ' PHE . . . . . 0.504 ' CZ ' HD21 ' A' ' 13' ' ' LEU . 23.8 t80 -62.01 -39.28 91.72 Favored 'General case' 0 C--N 1.301 -1.509 0 C-N-CA 118.109 -1.436 . . . . 0.0 112.295 173.112 . . . . . . . . 2 2 . 1 . 001 nuclear build full ' A' A ' 10' ' ' LYS . . . . . 0.443 ' HA ' HD12 ' A' ' 13' ' ' LEU . 26.6 tptt -60.06 -43.76 95.17 Favored 'General case' 0 C--O 1.261 1.672 0 CA-C-N 114.757 -1.111 . . . . 0.0 112.999 171.815 . . . . . . . . 2 2 . 1 . 001 nuclear build full ' A' A ' 11' ' ' ARG . . . . . 0.407 ' O ' ' HD2' ' A' ' 15' ' ' PHE . 0.1 OUTLIER -63.62 -44.45 93.89 Favored 'General case' 0 C--N 1.301 -1.527 0 C-N-CA 126.952 2.101 . . . . 0.0 111.137 178.754 . . . . . . . . 3 3 . 1 . 001 nuclear build full ' A' A ' 12' ' ' LEU . . . . . 0.426 ' HA ' HD13 ' A' ' 12' ' ' LEU . 3.3 mm? -66.3 -39.51 89.39 Favored 'General case' 0 C--N 1.296 -1.753 0 O-C-N 125.684 1.865 . . . . 0.0 109.261 -178.09 . . . . . . . . 2 2 . 1 . 001 nuclear build full ' A' A ' 13' ' ' LEU . . . . . 0.504 HD21 ' CZ ' ' A' ' 9' ' ' PHE . 65.5 mt -61.85 -40.01 93.87 Favored 'General case' 0 C--O 1.26 1.615 0 O-C-N 126.006 2.066 . . . . 0.0 110.805 177.163 . . . . . . . . 2 2 . 1 . 001 nuclear build full ' A' A ' 14' ' ' CYS . . . . . . . . . . . . . 0.3 OUTLIER -66.8 -39.92 87.93 Favored 'General case' 0 C--O 1.261 1.696 0 O-C-N 125.314 1.634 . . . . 0.0 112.857 -179.98 . . . . . . . . 2 2 . 1 . 001 nuclear build full ' A' A ' 15' ' ' PHE . . . . . 0.407 ' HD2' ' O ' ' A' ' 11' ' ' ARG . 57.0 m-85 . . . . . 0 C--O 1.26 1.63 0 O-C-N 125.158 1.536 . . . . 0.0 112.929 175.606 . . . . . . . . 1 1 . 1 . 001 nuclear nobuild full ' A' A ' 1' ' ' ARG . . . . . . . . . . . . . 0.0 OUTLIER . . . . . 0 C--O 1.263 1.806 0 N-CA-C 113.143 0.794 . . . . 0.0 113.143 . . . . . . . . . 1 1 . 1 . 001 nuclear nobuild full ' A' A ' 2' ' ' SER . . . . . 0.602 ' HB2' ' HD2' ' A' ' 5' ' ' PHE . 86.0 p -125.82 70.11 65.71 Favored Pre-proline 0 C--O 1.258 1.545 0 N-CA-C 116.736 2.124 . . . . 0.0 116.736 176.186 . . . . . . . . 2 2 . 1 . 001 nuclear nobuild full ' A' A ' 3' ' ' PRO . . . . . . . . . . . . . 3.1 Cg_endo -73.2 -39.5 2.13 Favored 'Trans proline' 0 C--O 1.263 1.75 0 C-N-CA 121.081 1.187 . . . . 0.0 110.748 -174.243 . . . . . . . . 1 1 . 1 . 001 nuclear nobuild full ' A' A ' 4' ' ' ASP . . . . . . . . . . . . . 0.8 OUTLIER -57.92 -43.5 86.26 Favored 'General case' 0 C--O 1.258 1.515 0 O-C-N 125.631 1.832 . . . . 0.0 111.521 -178.914 . . . . . . . . 2 2 . 1 . 001 nuclear nobuild full ' A' A ' 5' ' ' PHE . . . . . 0.602 ' HD2' ' HB2' ' A' ' 2' ' ' SER . 20.5 m-85 -63.23 -42.37 99.21 Favored 'General case' 0 C--O 1.261 1.704 0 O-C-N 125.677 1.86 . . . . 0.0 111.366 179.739 . . . . . . . . 2 2 . 1 . 001 nuclear nobuild full ' A' A ' 6' ' ' ARG . . . . . . . . . . . . . 49.0 mtp180 -63.97 -40.36 96.22 Favored 'General case' 0 C--O 1.258 1.551 0 O-C-N 125.988 2.055 . . . . 0.0 110.785 177.579 . . . . . . . . 1 1 . 1 . 001 nuclear nobuild full ' A' A ' 7' ' ' LYS . . . . . . . . . . . . . 0.0 OUTLIER -64.07 -42.77 96.87 Favored 'General case' 0 C--O 1.244 0.789 0 O-C-N 127.276 2.86 . . . . 0.0 110.485 179.072 . . . . . . . . 2 2 . 1 . 001 nuclear nobuild full ' A' A ' 8' ' ' ALA . . . . . . . . . . . . . . . -65.62 -38.42 89.37 Favored 'General case' 0 C--N 1.312 -1.053 0 O-C-N 126.793 2.558 . . . . 0.0 108.928 178.765 . . . . . . . . 1 1 . 1 . 001 nuclear nobuild full ' A' A ' 9' ' ' PHE . . . . . 0.504 ' CZ ' HD21 ' A' ' 13' ' ' LEU . 23.8 t80 -62.01 -39.28 91.72 Favored 'General case' 0 C--N 1.301 -1.509 0 C-N-CA 118.109 -1.436 . . . . 0.0 112.295 173.112 . . . . . . . . 2 2 . 1 . 001 nuclear nobuild full ' A' A ' 10' ' ' LYS . . . . . 0.443 ' HA ' HD12 ' A' ' 13' ' ' LEU . 26.6 tptt -60.06 -43.76 95.17 Favored 'General case' 0 C--O 1.261 1.672 0 CA-C-N 114.757 -1.111 . . . . 0.0 112.999 171.815 . . . . . . . . 2 2 . 1 . 001 nuclear nobuild full ' A' A ' 11' ' ' ARG . . . . . 0.407 ' O ' ' HD2' ' A' ' 15' ' ' PHE . 0.1 OUTLIER -63.62 -44.45 93.89 Favored 'General case' 0 C--N 1.301 -1.527 0 C-N-CA 126.952 2.101 . . . . 0.0 111.137 178.754 . . . . . . . . 3 3 . 1 . 001 nuclear nobuild full ' A' A ' 12' ' ' LEU . . . . . 0.426 ' HA ' HD13 ' A' ' 12' ' ' LEU . 3.3 mm? -66.3 -39.51 89.39 Favored 'General case' 0 C--N 1.296 -1.753 0 O-C-N 125.684 1.865 . . . . 0.0 109.261 -178.09 . . . . . . . . 2 2 . 1 . 001 nuclear nobuild full ' A' A ' 13' ' ' LEU . . . . . 0.504 HD21 ' CZ ' ' A' ' 9' ' ' PHE . 65.5 mt -61.85 -40.01 93.87 Favored 'General case' 0 C--O 1.26 1.615 0 O-C-N 126.006 2.066 . . . . 0.0 110.805 177.163 . . . . . . . . 2 2 . 1 . 001 nuclear nobuild full ' A' A ' 14' ' ' CYS . . . . . . . . . . . . . 0.3 OUTLIER -66.8 -39.92 87.93 Favored 'General case' 0 C--O 1.261 1.696 0 O-C-N 125.314 1.634 . . . . 0.0 112.857 -179.98 . . . . . . . . 2 2 . 1 . 001 nuclear nobuild full ' A' A ' 15' ' ' PHE . . . . . 0.407 ' HD2' ' O ' ' A' ' 11' ' ' ARG . 57.0 m-85 . . . . . 0 C--O 1.26 1.63 0 O-C-N 125.158 1.536 . . . . 0.0 112.929 175.606 . . . . . . . . 1 1 . 1 stop_ save_