CNRS Nantes University US2B US2B
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Should you encounter any unexpected behaviour,
please let us know.
 elNémo has been hacked on november 27th.
It has been moved away and runs again.
**Still some additional cleaning from time to time**
Sorry for the inconvenience.


***  hiv1_closed_cutoff10_ca  ***

Normal Mode Analysis for ID 2604200934113787487

Conformational change expected to be analysed

%Projmod-Wn> Eigenvector 96 Norm= 1.0001

The following table indicates for every normal mode its frequency (black, normalized relative to the lowest mode frequency) and its collectivity (magenta). If a second structure was submitted, the cummulative overlap between the normal modes and the conformational change is computed (red). The corresponding amplitude (dq) is then also given (green). Click on the mode link to obtain a visualization of the mean square displacement <R2> of the C-alpha atoms associated to each mode.

WARNING: there are 3 low-collectivity modes among your first 5 modes (see below)! The degree of collectivity indicates the fraction of residues that are significantly affected by a given mode. While low-frequency modes are expected to have collective character, computed ones sometimes happen to be localized. In such cases, they correspond to motions of some extended parts of the system, as often observed in crystallographic protein structures for N- and C-termini.

WARNING: Rotation-translation modes have a cumulative overlap of 0.8310 !!! This probably means that the second conformation was not fitted properly onto the first one.

[HELP on collectivity] [HELP on overlap]

<R2> frequency collectivity cumulative overlap amplitude (dq)
mode 7 1.00 0.0146 0.051 5.8582
mode 8 11793.49 0.0771 0.095 -5.4474
mode 9 14495.57 0.2378 0.131 -5.0404
mode 10 16310.89 0.1411 0.153 3.9357
mode 11 17986.34 0.0468 0.182 4.9300
mode 12 20544.40 0.1049 0.204 -3.9334
mode 13 23937.37 0.0723 0.212 -1.5814
mode 14 29817.69 0.3274 0.233 4.3641
mode 15 34714.49 0.5842 0.263 -4.3589
mode 16 36879.06 0.4274 0.263 1.8406
mode 17 40570.14 0.1506 0.270 -0.9690
mode 18 42459.74 0.2464 0.285 -3.4226
mode 19 45828.54 0.2535 0.292 -2.2460
mode 20 47479.06 0.4282 0.299 2.3717
mode 21 51120.31 0.3782 0.306 -1.9172
mode 22 55464.11 0.5070 0.306 -1.4906
mode 23 57088.94 0.3791 0.321 -3.4198
mode 24 57884.29 0.2629 0.328 1.9265
mode 25 58849.00 0.1189 0.328 0.2629
mode 26 60985.57 0.2590 0.328 0.9989
mode 27 62459.26 0.6334 0.328 1.0890
mode 28 65299.60 0.1869 0.365 -4.7437
mode 29 67088.14 0.4119 0.365 1.2466
mode 30 68353.14 0.5542 0.445 7.6929
mode 31 68858.23 0.4401 0.445 -0.4049
mode 32 70317.49 0.3894 0.467 -3.5989
mode 33 72467.91 0.4295 0.525 6.6941
mode 34 74090.11 0.4702 0.533 1.9949
mode 35 75639.37 0.3560 0.540 1.5950
mode 36 77524.69 0.3177 0.540 1.0597
mode 37 78957.89 0.3271 0.547 -2.0387
mode 38 81701.83 0.6760 0.554 2.1443
mode 39 82703.00 0.5243 0.569 -3.3998
mode 40 85849.54 0.4973 0.569 0.7305
mode 41 87256.31 0.5106 0.598 4.4612
mode 42 90057.37 0.5938 0.598 -0.9862
mode 43 90982.49 0.4772 0.620 4.2635
mode 44 92128.43 0.4060 0.635 -3.0268
mode 45 93769.77 0.4189 0.635 -1.1462
mode 46 94922.63 0.2973 0.642 1.5544
mode 47 95845.97 0.3813 0.642 -1.9076
mode 48 97528.37 0.4305 0.649 2.0044
mode 49 98500.60 0.3946 0.649 0.6859
mode 50 100483.86 0.3547 0.678 -4.1740
mode 51 101957.80 0.3496 0.686 -2.1719
mode 52 102944.29 0.3707 0.686 2.1267
mode 53 104843.54 0.4602 0.700 -2.9287
mode 54 105301.57 0.1347 0.708 1.9194
mode 55 107383.37 0.5891 0.708 0.5576
mode 56 108453.66 0.2769 0.708 0.5901
mode 57 110780.60 0.3748 0.708 1.5813
mode 58 111170.89 0.1684 0.708 0.2063
mode 59 111861.40 0.5264 0.715 -1.8223
mode 60 114034.51 0.4309 0.715 1.5330
mode 61 115585.49 0.2474 0.722 1.4071
mode 62 116373.91 0.4025 0.722 -0.9091
mode 63 119193.29 0.5003 0.730 -2.0181
mode 64 121195.31 0.4219 0.730 1.5598
mode 65 121631.34 0.3590 0.737 -1.8416
mode 66 122341.49 0.3071 0.737 -0.2349
mode 67 122891.00 0.4237 0.737 -0.9738
mode 68 124563.60 0.3899 0.737 -0.0308
mode 69 125257.11 0.4460 0.744 1.8200
mode 70 127277.20 0.5027 0.744 0.8711
mode 71 128743.46 0.5622 0.759 3.3709
mode 72 131040.66 0.4843 0.759 1.3525
mode 73 133550.74 0.4409 0.759 -0.3180
mode 74 134197.83 0.4742 0.773 2.6963
mode 75 135411.66 0.3935 0.773 1.4978
mode 76 137036.80 0.3033 0.773 -0.7273
mode 77 138538.71 0.5809 0.795 3.7042
mode 78 139749.29 0.4264 0.802 2.7767
mode 79 140402.09 0.6017 0.817 -2.5811
mode 80 141290.51 0.4183 0.817 0.6777
mode 81 142646.49 0.4972 0.817 -1.0446
mode 82 143017.14 0.5664 0.817 0.0731
mode 83 143688.57 0.5386 0.824 1.6655
mode 84 145287.37 0.3805 0.824 2.0424
mode 85 146967.06 0.3862 0.824 -0.0947
mode 86 147620.54 0.3736 0.824 -0.2019
mode 87 148465.77 0.3921 0.824 -0.8460
mode 88 149177.23 0.4260 0.824 0.3007
mode 89 150366.14 0.4534 0.824 -0.0302
mode 90 151068.66 0.5684 0.839 -2.3369
mode 91 152810.77 0.2611 0.839 1.8081
mode 92 153376.63 0.5030 0.839 0.7271
mode 93 154315.11 0.3984 0.846 -1.9793
mode 94 155433.80 0.3964 0.854 -2.0702
mode 95 156267.57 0.5600 0.854 0.8796
mode 96 157952.34 0.3951 0.868 3.2203
mode 97 158894.09 0.4040 0.875 -2.0605
mode 98 159287.34 0.5034 0.875 -1.8053
mode 99 160491.34 0.5543 0.912 -4.8697
mode 100 161358.63 0.4636 0.927 3.1385
mode 101 162961.29 0.5331 0.934 2.5494
mode 102 163903.60 0.4129 0.941 -1.9566
mode 103 164255.57 0.5522 0.948 2.0777
mode 104 164840.54 0.5490 0.948 -0.0510
mode 105 166091.23 0.4739 0.956 3.0380
mode 106 166525.29 0.5066 0.963 1.5222

If you find results from this site helpful for your research, please cite one of our papers:

elNémo is maintained by Yves-Henri Sanejouand.
It was developed by Karsten Suhre.
Between 2003 and 2014, it was hosted by IGS (Marseille).
Between 2015 and 2025, it was hosted by US2B (Nantes).
Last modification: december 26th, 2025.