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_open_cutoff8_ca  ***

Normal Mode Analysis for ID 2604200934113787483

Conformational change expected to be analysed

%Projmod-Wn> Eigenvector 69 Norm= 0.9999

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 2 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 0.2960 !!! 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 0.3808 0.001 -1.0475
mode 8 1.00 0.0425 0.026 -9.6468
mode 9 1.00 0.0303 0.067 -12.3089
mode 10 1.00 0.6507 0.616 -44.7320
mode 11 1.00 0.4282 0.674 14.4705
mode 12 1.00 0.1017 0.810 -22.3676
mode 13 1.00 0.0358 0.827 -7.7734
mode 14 4494.32 0.1868 0.830 -3.5089
mode 15 5884.09 0.0902 0.831 -2.0508
mode 16 7214.35 0.2934 0.833 -1.7031
mode 17 7585.56 0.1802 0.833 -1.7570
mode 18 10783.26 0.0572 0.836 3.3690
mode 19 12319.68 0.2931 0.837 2.4909
mode 20 12512.74 0.2591 0.840 -2.4343
mode 21 14329.12 0.2315 0.840 0.6570
mode 22 15162.65 0.1442 0.840 0.3195
mode 23 15564.29 0.4048 0.840 -1.3009
mode 24 18035.35 0.4919 0.840 -0.8188
mode 25 18837.56 0.3558 0.843 -2.7844
mode 26 21606.68 0.2305 0.844 -2.3337
mode 27 23239.71 0.3110 0.844 -1.8811
mode 28 24616.56 0.1755 0.844 0.8660
mode 29 27247.94 0.4031 0.846 0.4730
mode 30 30005.74 0.5549 0.846 -1.0164
mode 31 31272.44 0.4673 0.854 -5.6955
mode 32 33205.53 0.4998 0.859 -4.2626
mode 33 33919.74 0.4309 0.860 -2.2705
mode 34 34456.74 0.2915 0.861 -2.2915
mode 35 36245.62 0.3719 0.863 0.9423
mode 36 38044.24 0.4711 0.863 0.9907
mode 37 38324.71 0.4003 0.864 -2.7149
mode 38 40195.29 0.4163 0.880 7.3779
mode 39 40397.79 0.7341 0.880 -2.1418
mode 40 40674.59 0.3844 0.882 -0.9126
mode 41 43014.65 0.5591 0.883 -2.7806
mode 42 44253.56 0.2990 0.887 -3.8294
mode 43 45380.15 0.2424 0.887 0.5873
mode 44 46468.44 0.3008 0.887 -0.3134
mode 45 50547.74 0.3089 0.889 1.8620
mode 46 51059.68 0.4331 0.897 -5.9643
mode 47 51950.85 0.4352 0.900 2.7451
mode 48 52691.65 0.5279 0.900 -1.3354
mode 49 56583.97 0.4863 0.900 0.8073
mode 50 56988.12 0.5740 0.903 -3.2623
mode 51 59970.68 0.4249 0.904 1.0768
mode 52 60621.94 0.4215 0.904 -0.0908
mode 53 62746.76 0.4721 0.904 0.1654
mode 54 65444.12 0.5093 0.904 1.1982
mode 55 66080.06 0.5507 0.904 1.3517
mode 56 66908.38 0.5188 0.906 2.1096
mode 57 68587.09 0.4646 0.919 6.7243
mode 58 70116.68 0.5100 0.919 -1.4948
mode 59 72251.68 0.4033 0.920 -2.0639
mode 60 73051.91 0.3051 0.923 -3.4685
mode 61 73677.56 0.5250 0.923 0.2037
mode 62 74188.00 0.5341 0.923 -0.4548
mode 63 74558.29 0.4445 0.925 -1.3936
mode 64 76262.56 0.5629 0.925 1.8777
mode 65 77311.94 0.5646 0.926 -1.4024
mode 66 78425.32 0.5587 0.926 -0.1323
mode 67 80263.62 0.3482 0.926 0.6023
mode 68 83128.97 0.3623 0.926 -0.1459
mode 69 83855.85 0.5370 0.926 -1.0490
mode 70 84250.24 0.5657 0.927 2.3599
mode 71 85690.74 0.5039 0.927 1.5068
mode 72 86254.26 0.4915 0.930 -2.6791
mode 73 88633.82 0.4869 0.930 1.3073
mode 74 89958.82 0.3916 0.930 0.9072
mode 75 90698.47 0.1662 0.932 -1.3189
mode 76 91068.82 0.5166 0.933 -2.2843
mode 77 91832.82 0.5888 0.933 -0.7304
mode 78 92369.94 0.4637 0.933 1.0485
mode 79 92832.56 0.4330 0.933 -0.6266
mode 80 94060.53 0.6079 0.935 -1.9813
mode 81 94692.76 0.4466 0.940 4.7413
mode 82 96263.18 0.4131 0.940 -0.0792
mode 83 97400.79 0.5907 0.943 2.9933
mode 84 97677.91 0.5820 0.943 -0.0130
mode 85 99729.21 0.5471 0.943 1.8207
mode 86 99887.59 0.5299 0.945 2.1153
mode 87 100518.71 0.5836 0.945 0.2258
mode 88 103143.03 0.4554 0.952 5.0059
mode 89 104225.15 0.4494 0.952 -0.0952
mode 90 105199.24 0.3820 0.960 5.7615
mode 91 106308.41 0.5263 0.960 0.0065
mode 92 107406.12 0.3796 0.962 -2.1270
mode 93 108021.62 0.4531 0.965 2.6076
mode 94 108210.32 0.2399 0.965 0.0547
mode 95 110218.26 0.5337 0.965 -0.2515
mode 96 111231.59 0.5493 0.965 0.8389
mode 97 111917.21 0.4838 0.966 2.1220
mode 98 112689.24 0.4253 0.966 1.5288
mode 99 113949.38 0.4672 0.968 2.3340
mode 100 115151.44 0.3230 0.970 3.4434
mode 101 115857.91 0.0771 0.970 -0.5133
mode 102 116516.32 0.3938 0.970 -0.3915
mode 103 117214.56 0.5141 0.972 -1.7481
mode 104 117735.50 0.3961 0.975 -3.5064
mode 105 119156.38 0.4817 0.978 2.4507
mode 106 120560.53 0.5671 0.979 -2.8993

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.