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  17.3 17.3 29.5 -14.9 48.5 59.1 7.5
 VAL-345   ASP-346  15.8 14.6 49.3 23.9 32.0 22.4 176.6
 ASP-346   PHE-347  14.5 15.0 27.1 -6.4 48.5 51.4 54.1
 PHE-347   SER-348  13.0 13.4 12.0 2.2 89.5 97.2 6.0

Downloading Image

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  25.2 24.4 -17.5 10.2 88.2 82.3 -1.6
 THR-1382   SER-1383  22.3 21.4 -12.5 18.1 37.6 37.7 -11.1
 SER-1383   VAL-1384  23.4 22.7 3.0 26.1 125.7 137.1 -38.7
 VAL-1384   THR-1385  21.5 21.5 29.0 -17.4 107.6 80.2 12.4
 THR-1385   ARG-1386  23.4 21.8 98.3 -99.0 47.3 69.1 31.8
 ARG-1386   HIS-1387  20.7 19.1 -144.0 39.0 167.8 154.0 -299.2
 HIS-1387   GLY-1388  20.3 19.7 55.4 -33.8 66.2 90.5 14.1
 GLY-1388   PHE-1389  17.4 18.6 130.8 11.1 123.4 112.5 418.0
 PHE-1389   ASN-1390  18.0 15.9 3.2 53.7 109.2 90.4 15.7
 ASN-1390   ARG-1391  14.2 13.9 -121.2 177.4 85.2 148.8 31.6
 ARG-1391   SER-1392  12.3 13.1 130.8 -150.4 108.6 97.7 -73.2
 SER-1392   ASN-1393  13.5 12.3 -2.2 -45.5 73.0 106.4 -37.3
 ASN-1393   THR-1394  10.3 8.7 -70.2 65.9 50.1 42.8 14.2
 THR-1394   GLY-1395  8.0 7.2 -28.0 70.8 119.3 96.6 35.9
 GLY-1395   ALA-1396  5.4 4.5 -23.9 32.7 102.7 91.3 11.5

Downloading Image

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  4.7 4.0 -5.5 31.5 104.0 106.4 31.0
 MET-1433   ALA-1434  1.8 1.3 18.4 -56.2 150.0 148.4 86.7
 ALA-1434   PRO-1435  2.1 2.3 17.2 0.3 79.9 82.2 9.0
 PRO-1435   ILE-1436  5.8 6.0 -0.7 24.0 102.9 120.7 32.9
 ILE-1436   GLY-1437  7.3 7.1 29.6 -68.7 20.5 50.6 -91.7
 GLY-1437   THR-1438  9.4 9.2 61.4 -25.6 70.1 74.3 28.1
 THR-1438   GLY-1439  7.4 6.7 10.9 -15.8 127.0 136.9 4.0
 GLY-1439   ALA-1440  6.2 6.2 27.4 -19.6 144.9 140.6 -29.3
 ALA-1440   PHE-1441  9.1 9.4 -79.9 81.8 92.3 92.4 18.8
 PHE-1441   ASP-1442  11.3 11.7 -2.1 -2.6 117.1 105.2 -5.3

Downloading Image

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