3HKZ
the x-ray crystal structure of rna polymerase from archaea
Total interactions analyzed 325
Total true interactions 67
Strongest Interaction Chains D-L
Int. Res. 125
Norm. En. per Res. -4.4219
Hub Node A(10)
Click on the Nodes or Edges in the network to see the details
Weak Strong
Width of edge <-> No. of inter. res.
All Interactions
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Chains Hydro. Bond Ener. (kJ/mol) Elec. Ener. (kJ/mol) VDW. Ener. (kJ/mol) Tot. Stab. Ener. (kJ/mol) #int. res. # Short cont. #Hydr. int. #VDW pairs #salt bridges #Pot. fav. elec. int #Pot. unfav. elec. int int. res.
A-C -132.3638 -135.6512 -1089.9 -1357.915 354 119 41 49922 11 130 138
A-B -347.4314 -138.7408 -2061.0 -2547.1723 641 210 41 88363 20 211 192
A-D 0.0 20.2559 -7.6899 12.566 20 0 0 340 1 10 8
A-E -11.1986 0.0 -7.359 -18.5575 16 1 0 236 0 2 3
A-G -62.4172 -29.07 -299.48 -390.9672 123 49 10 15490 3 38 33
A-H 0.0 -14.7072 -138.974 -153.6812 66 4 5 6383 1 13 11
A-K -35.5493 -21.5171 -211.302 -268.3684 126 10 8 11014 1 34 35
A-L -10.51 -34.4889 -169.574 -214.5729 73 20 5 7921 3 24 22
A-Y -4.5398 -10.2911 -50.2786 -65.1095 34 4 0 2558 2 23 29
A-J -23.8658 24.5188 -133.049 -132.3961 66 31 1 6257 1 30 35
C-B -13.6554 7.8285 -188.467 -194.294 131 16 11 10077 0 14 18
C-E -15.8475 -1.274 -140.961 -158.0825 48 18 2 5585 0 7 6
C-G 0.0 0.0 -0.0015 -0.0015 2 0 0 1 0 0 1
C-H -32.1625 -12.737 -270.85 -315.7496 101 27 9 11763 5 42 30
C-K -21.146 -18.9551 -251.229 -291.3302 89 34 9 10665 1 16 14
C-Y 0.0 17.598 -38.4996 -20.9016 26 3 0 1777 0 12 20
C-J 0.0 0.624 -46.4183 -45.7943 55 2 0 2684 0 26 29
B-D -24.3978 6.0107 -366.699 -385.086 146 38 6 15929 2 46 52
B-E 0.0 1.1241 -46.5388 -45.4147 32 3 1 2265 0 12 8
B-F 0.0 0.0 -4.4857 -4.4857 9 0 1 268 0 0 0
B-G 0.0 0.0 -0.0014 -0.0014 5 0 0 4 0 1 2
B-K 0.0 0.0 -7.9127 -7.9127 15 0 0 449 0 0 1
B-L -3.3456 4.2345 -46.8672 -45.9783 34 4 0 2236 1 9 9
B-N -83.1577 -14.7827 -524.291 -622.2315 159 67 7 21155 3 28 32
B-P -17.0555 -26.5068 -211.856 -255.4184 101 27 8 9908 0 33 25
D-G 0.0 0.0 -0.4599 -0.4599 6 0 0 67 0 4 2
D-L -68.3128 -107.5989 -376.823 -552.7346 125 21 16 19198 9 49 53
D-N 0.0 4.6049 -213.441 -208.8361 100 26 9 10963 0 18 14
D-P -54.6585 -51.3096 -127.743 -233.7111 54 6 11 5511 3 19 10
E-F -87.3867 -65.847 -454.609 -607.8426 149 37 18 20841 2 39 29
E-K -4.4425 0.0 -99.4134 -103.8559 42 15 2 4183 0 5 1
E-J 0.0 6.8165 -20.2944 -13.4779 24 0 0 1043 0 12 10
G-J 0.0 23.3105 -18.233 5.0775 18 7 0 1748 0 5 13
H-K -16.3699 0.0125 -89.6654 -106.0228 39 5 2 3596 4 13 10
H-Y -16.7504 11.8749 -110.328 -115.2034 65 19 0 5858 2 28 29
K-J 0.0 0.0 -9.6306 -9.6306 24 0 1 902 0 6 8
L-J 0.0 0.0 -0.2468 -0.2468 9 0 0 101 0 1 1
N-P 0.0 5.5034 -21.3556 -15.8522 11 2 0 783 0 2 4
I-M -110.3006 -134.7658 -1097.4 -1342.4664 348 124 42 50140 12 131 140
I-J -358.2957 -142.5266 -2099.7 -2600.5223 629 202 40 88354 19 211 190
I-O 0.0 19.3163 -8.1108 11.2055 20 2 0 341 1 10 8
I-Q -7.729 0.0 -6.5326 -14.2617 14 1 0 251 0 2 3
I-S -69.6034 -15.8018 -92.5585 -177.9637 70 8 3 4782 2 14 11
I-T -3.6144 -13.5278 8 ARG67T, ASP835I, ASP852I, GLN41T, GLU34T, GLU40T, LYS122I, TYR842I
I-U -16.8836 -25.8102 10 ARG29U, ARG34U, ASN16U, ASP835I, GLU471I, GLU475I, GLU478I, GLU66U, LYS477I, LYS484I
I-V -9.2206 -40.2143 12 ARG33V, ARG34V, ARG436I, ARG444I, ASP329I, ASP529I, GLU14V, GLU519I, HIS47V, LYS56V, LYS7V, VAL527I
I-Z -3.6657 -8.0769 7 ASP70Z, GLU112I, GLU69Z, GLU76Z, LYS122I, LYS66Z, LYS73Z
M-J -10.211 -4.049 -207.072 -221.332 133 15 13 10680 0 16 18
M-Q 0.0 -0.2888 -127.192 -127.4808 44 25 2 5441 0 9 7
M-T -21.1247 -8.27 15 ARG290M, ARG322M, ARG67T, ARG79T, ASP268M, ASP30M, ASP49T, GLU281M, GLU282M, GLU287M, GLU291M, GLU74T, HIS14T, HIS20T, LYS271M
M-U -17.9508 -6.1823 13 ARG29U, ARG34U, ARG391M, ARG39U, ARG79U, ARG81U, ASP30M, GLU31U, GLU387M, GLU68M, HIS14U, THR389M, THR77U
M-Z 0.0 10.7035 4 ARG327M, ARG81Z, ARG82Z, HIS332M
J-O -25.4156 8.8885 -400.748 -417.2751 152 51 6 16605 2 46 53
J-Q 0.0 1.5562 -26.3926 -24.8364 30 3 1 1940 0 9 7
J-R 0.0 0.0 -1.7098 -1.7098 10 0 1 189 0 0 0
J-S 0.0 0.0 -0.0052 -0.0052 5 0 0 7 0 1 2
J-V 0.0 4.0053 5 ARG974J, ASP21V, ASP896J, ASP972J, HIS22V
J-W -71.6656 -14.6447 25 ARG42W, ARG46W, ARG47W, ARG6W, ARG700J, ARG716J, ARG747J, ASP136J, ASP144J, ASP54W, ASP907J, GLU58W, GLU968J, GLY930J, HIS52W, HIS61W, HIS696J, LEU935J, LYS146J, LYS41W, LYS902J, MET1W, PHE8W, SER51W, THR9W
J-X -13.7741 -29.7121 16 ARG38X, ARG751J, ARG88J, GLU140J, GLU793J, GLU801J, GLU803J, GLU84J, GLU854J, ILE34X, ILE48X, ILE852J, LYS11X, LYS32X, LYS39X, LYS43X
O-S 0.0 0.0 -0.2634 -0.2634 6 0 0 50 0 3 2
O-V -59.874 -162.5155 24 ARG30O, ARG33V, ARG34V, ARG77V, ASP21V, ASP51V, GLU20V, GLU239O, GLU23O, GLU254O, GLU257O, GLU2V, GLU74V, GLU86V, HIS22V, ILE3O, LYS151O, LYS252O, LYS259O, LYS92V, SER2O, THR23V, TYR20O, TYR35O
O-W -2.4226 4.5376 9 ARG12O, ARG6W, ASP127O, ASP16W, GLU231O, LEU64O, LYS155O, LYS17W, LYS41W
O-X -29.7767 -51.5572 10 ALA47X, ARG38X, ASP42O, ASP43O, ASP55O, GLU48O, LYS155O, LYS43X, LYS46X, PHE46O
Q-R -106.7659 -59.181 -452.721 -618.6679 147 38 20 19634 3 37 28
T-U -11.4948 -16.0583 10 ARG64T, ASP12U, GLU17U, GLU27T, GLU34T, GLU74T, HIS14U, LYS30T, LYS86U, TYR78T
T-Z -12.9338 -2.7826 9 ARG38T, ARG46T, ARG78Z, ASP70Z, GLU40T, GLU62Z, GLU63Z, LYS33T, LYS66Z
W-X 0.0 5.6679 2 ARG64W, LYS8X