Dna-Directed RNA Polymerase II Largest Subunit

(All numbering and residues are taken from first PDB file)

Bending Residue Dihedral Analysis

Residue i Residue i+1 Distance of hinge axis to residue i in conformer 1 (A) Distance of hinge axis to residue i in conformer 2 (A) Change in psi (i) (deg) Change in phi (i+1) (deg) Angle of psi(i) axis to hinge axis conformer 1 (deg) Angle of psi(i) axis to hinge axis conformer 2 (deg) Percentage Progress  ARG-344   VAL-345  17.9 18.0 70.1 -58.7 46.2 62.5 4.0  VAL-345   ASP-346  16.6 15.7 57.6 10.9 32.8 23.0 160.7  ASP-346   PHE-347  15.3 15.8 27.3 -5.5 46.2 49.1 59.2  PHE-347   SER-348  14.0 14.3 17.4 -17.1 88.6 96.0 3.1 Graph shows rotational transition at bending residues and can be used to identify hinge bending residues. Probably only informative for interdomain rotations greater than 20 degrees

Residue i Residue i+1 Distance of hinge axis to residue i in conformer 1 (A) Distance of hinge axis to residue i in conformer 2 (A) Change in psi (i) (deg) Change in phi (i+1) (deg) Angle of psi(i) axis to hinge axis conformer 1 (deg) Angle of psi(i) axis to hinge axis conformer 2 (deg) Percentage Progress  LEU-1381   THR-1382  25.9 25.0 -15.2 10.8 90.4 86.2 2.2  THR-1382   SER-1383  23.0 21.8 -15.0 10.6 39.5 40.9 15.5  SER-1383   VAL-1384  24.0 23.1 -13.0 36.8 55.4 48.0 -32.7  VAL-1384   THR-1385  22.0 21.8 84.2 -89.1 105.3 80.9 7.9  THR-1385   ARG-1386  24.0 21.5 82.3 -69.5 45.5 51.9 69.8  ARG-1386   HIS-1387  21.2 19.6 -135.6 10.1 167.4 158.4 -357.9  HIS-1387   GLY-1388  20.7 20.3 61.3 -50.4 64.5 87.5 12.8  GLY-1388   PHE-1389  17.8 18.9 101.4 45.0 121.0 118.7 435.9  PHE-1389   ASN-1390  18.2 16.6 8.4 35.0 109.2 93.8 27.8  ASN-1390   ARG-1391  14.5 14.8 -80.0 128.4 82.9 152.8 33.7  ARG-1391   SER-1392  12.7 13.5 149.7 154.6 110.0 86.6 -16.3  SER-1392   ASN-1393  14.1 12.2 -162.8 144.3 71.3 87.9 -71.3  ASN-1393   THR-1394  10.9 8.8 -65.8 72.9 51.8 33.3 -25.4  THR-1394   GLY-1395  8.5 7.9 -52.5 83.9 119.7 101.2 25.5 Graph shows rotational transition at bending residues and can be used to identify hinge bending residues. Probably only informative for interdomain rotations greater than 20 degrees

Residue i Residue i+1 Distance of hinge axis to residue i in conformer 1 (A) Distance of hinge axis to residue i in conformer 2 (A) Change in psi (i) (deg) Change in phi (i+1) (deg) Angle of psi(i) axis to hinge axis conformer 1 (deg) Angle of psi(i) axis to hinge axis conformer 2 (deg) Percentage Progress  GLN-1432   MET-1433  4.2 4.0 -14.7 20.8 104.8 114.9 16.7  MET-1433   ALA-1434  1.2 1.1 -32.1 2.0 32.0 45.2 72.5  ALA-1434   PRO-1435  2.2 2.0 -5.0 3.5 102.5 103.8 7.1 Graph shows rotational transition at bending residues and can be used to identify hinge bending residues. Probably only informative for interdomain rotations greater than 20 degrees