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
 MET-341   GLY-342  15.6 13.5 -14.9 157.6 169.7 145.8 371.5
 GLY-342   LYS-343  15.2 16.0 54.8 -32.5 71.8 66.1 24.5
 LYS-343   ARG-344  18.7 16.0 -157.3 3.7 146.4 152.9 -406.9
 ARG-344   VAL-345  18.4 18.3 47.4 -37.4 46.9 53.0 26.8
 VAL-345   ASP-346  16.9 16.1 36.9 30.8 31.8 25.0 155.7
 ASP-346   PHE-347  15.8 16.5 41.5 -14.9 47.2 45.5 34.2

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
 THR-1382   SER-1383  21.7 21.2 -6.4 9.5 39.4 52.2 -7.6
 SER-1383   VAL-1384  22.8 22.5 -13.6 28.9 54.3 35.4 4.3
 VAL-1384   THR-1385  21.0 21.9 81.8 -82.6 105.9 83.7 -23.5
 THR-1385   ARG-1386  23.1 21.5 95.1 -75.6 46.6 62.8 75.4
 ARG-1386   HIS-1387  20.4 19.3 -144.5 35.5 168.4 149.3 -301.8
 HIS-1387   GLY-1388  19.9 19.7 2.1 9.3 65.6 91.0 3.3
 GLY-1388   PHE-1389  17.0 18.5 108.4 33.3 121.8 117.0 400.4
 PHE-1389   ASN-1390  17.8 16.0 -1.4 50.4 70.0 89.5 10.4
 ASN-1390   ARG-1391  14.1 14.6 -56.4 104.8 83.5 157.0 41.3
 ARG-1391   SER-1392  12.1 12.7 116.5 164.7 108.9 91.8 -12.7
 SER-1392   ASN-1393  13.1 11.8 124.8 -144.6 108.7 105.8 -54.0
 ASN-1393   THR-1394  9.9 8.0 -7.4 28.1 50.7 14.5 -43.3
 THR-1394   GLY-1395  7.8 7.3 -24.1 70.9 118.8 86.2 32.6

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  5.3 4.9 7.5 15.5 76.2 62.6 13.1
 MET-1433   ALA-1434  1.9 1.7 -62.2 16.8 31.0 45.9 100.6
 ALA-1434   PRO-1435  1.1 1.2 -22.1 23.4 101.7 100.3 -3.0

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