GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
ELFV_dehydrog_N - GluLeuPheVal dehydrogenase dimerisation domain
Pfam: PF02812 (v27) Consensus Sequence
Download Alignment
(Note: includes all positions in family; we filtered this alignment to remove sites that had > 75% gaps before running GREMLIN. )
Length: 131
Sequences: 1572
Seq/Len: 12
HH_delta: -0.011 (20Jul13)
GREMLIN Results:
Residue pairs sorted by strength in covariance:

Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] gremlin predictions, sequence seperation > 3. The i and j are positions as given in the consensus sequence. Show Scaled Distribution

ij Raw Score Scaled Score
2_E30_T0.931783.726
96_R126_E0.816023.263
28_H54_A0.78473.138
85_N89_R0.722212.888
6_Q47_E0.690062.760
116_G119_D0.643492.573
28_H58_T0.587662.350
26_V54_A0.572862.291
32_R65_G0.541672.166
95_G123_I0.51532.061
88_E92_R0.481251.925
30_T35_A0.471561.886
39_I94_F0.466561.866
1_P54_A0.465581.862
4_V51_L0.463371.853
4_V26_V0.457551.830
92_R126_E0.452681.810
35_A71_A0.442211.768
23_G94_F0.436141.744
32_R62_A0.431211.724
41_M115_T0.413261.653
39_I123_I0.411991.648
99_S130_V0.40061.602
6_Q22_R0.400051.600
126_E129_R0.395521.582
22_R76_K0.372751.491
77_I90_L0.366841.467
115_T120_M0.360581.442
84_D118_R0.360141.440
65_G68_F0.35941.437
92_R125_D0.351771.407
46_S49_E0.349571.398
4_V50_V0.349391.397
96_R129_R0.34491.379
73_G94_F0.340471.362
91_T95_G0.34041.361
43_P78_D0.3391.356
42_H113_V0.323641.294
7_V97_A0.319721.279
24_Y76_K0.317381.269
26_V47_E0.310781.243
93_R96_R0.304281.217
7_V23_G0.303311.213
41_M91_T0.301031.204
122_W125_D0.298551.194
91_T123_I0.293681.174
93_R97_A0.282171.128
6_Q24_Y0.281021.124
93_R129_R0.275851.103
48_E51_L0.270161.080
96_R99_S0.264911.059
27_Q35_A0.263041.052
72_K110_A0.253691.015
99_S128_R0.251421.005
27_Q106_R0.24890.995
96_R130_V0.247730.991
111_P120_M0.242530.970
88_E122_W0.24170.967
57_M60_K0.241150.964
44_Y49_E0.241040.964
40_R60_K0.240290.961
88_E126_E0.237870.951
40_R57_M0.236040.944
126_E130_V0.235890.943
124_A128_R0.235460.942
97_A100_P0.232670.930
120_M123_I0.230580.922
4_V48_E0.229060.916
28_H55_R0.228930.916
40_R53_L0.228160.912
4_V47_E0.22350.894
39_I109_P0.221340.885
32_R67_P0.221210.885
75_I94_F0.21750.870
87_R91_T0.216940.868
77_I86_E0.215250.861
80_K114_G0.211270.845
7_V98_L0.210210.841
7_V25_R0.209250.837
43_P80_K0.207780.831
92_R122_W0.204490.818
54_A58_T0.20410.816
99_S129_R0.20070.803
118_R122_W0.19740.789
3_R106_R0.197360.789
53_L60_K0.194650.778
111_P115_T0.192820.771
118_R121_A0.191590.766
17_P20_G0.189950.760
26_V71_A0.189210.757
46_S76_K0.18780.751
45_V49_E0.185570.742
24_Y50_V0.182460.730
38_G112_D0.182090.728
59_Y62_A0.180130.720
99_S127_Y0.180020.720
103_G107_D0.179910.719
39_I75_I0.179740.719
41_M75_I0.177850.711
21_L75_I0.177690.711
3_R7_V0.177070.708
42_H111_P0.176680.707
110_A120_M0.175740.703
5_I100_P0.175540.702
36_K67_P0.175220.701
75_I90_L0.174680.699
87_R90_L0.174570.698
87_R119_D0.173850.695
43_P79_P0.173820.695
73_G107_D0.17370.695
46_S78_D0.173620.694
19_T85_N0.172270.689
100_P106_R0.172130.688
59_Y121_A0.169850.679
21_L77_I0.169770.679
29_S52_R0.169550.678
57_M72_K0.169060.676
36_K61_C0.165370.661
72_K112_D0.165270.661
121_A125_D0.164240.657
88_E125_D0.163660.654
60_K72_K0.163620.654
95_G130_V0.163340.653
36_K68_F0.163280.653
2_E100_P0.161140.644
78_D84_D0.160670.643
95_G127_Y0.158790.635
60_K112_D0.158070.632
78_D86_E0.157730.631
8_R22_R0.157690.631
30_T71_A0.157450.630
36_K108_I0.157360.629
60_K110_A0.156850.627
44_Y76_K0.156610.626
67_P92_R0.156070.624
53_L57_M0.155560.622
51_L54_A0.155550.622
95_G99_S0.155480.622
31_A42_H0.15480.619
75_I115_T0.15420.617
29_S35_A0.154030.616
55_R59_Y0.153060.612
95_G126_E0.152410.609
1_P26_V0.152160.608
24_Y93_R0.150990.604
41_M77_I0.150990.604
34_P120_M0.15070.603
3_R27_Q0.149440.598
20_G23_G0.149410.598
3_R33_G0.148780.595
21_L90_L0.148410.594
4_V27_Q0.148380.593
50_V54_A0.148240.593
104_P124_A0.148110.592
61_C110_A0.147290.589
99_S104_P0.146970.588
5_I98_L0.145490.582
91_T119_D0.145460.582
61_C108_I0.145040.580
68_F110_A0.144880.579
57_M112_D0.144640.578
49_E62_A0.144480.578
108_I112_D0.144010.576
1_P51_L0.143290.573
34_P108_I0.142920.572
17_P106_R0.14230.569
93_R130_V0.142170.569
8_R20_G0.141350.565
120_M125_D0.140950.564
57_M110_A0.140860.563
27_Q107_D0.140430.562
67_P125_D0.139520.558
4_V54_A0.138990.556
24_Y47_E0.138810.555
51_L55_R0.137910.552
39_I73_G0.137370.549
109_P120_M0.137250.549
Legend: The value of the raw score is the function of the learning procedure, L2 normalization and APC (entropic) correction. These are to be used for relative ranking only.
HHsearch Results:
Top (length/2) GREMLIN results overlayed on top 10 PDB hits:

Legend: The grey circles underneath are pdb residue contacts (min distance < 5 Angstroms). The coloring of these circles is based on HHsearch results which uses the overall probability, per-site alignment prob and agreement of top hits weighted by HHsearch score (Note we only consider monomeric contacts, there might be homo-oligomeric contacts in the pdb that are not shown.)
PDB Cov Prob HH_delta
3k92A1100-0.011
3mw9A1100-0.004
3aogA11000.01
2yfqA11000.011
4fccA11000.012
3aoeE11000.012
3r3jA11000.015
2bmaA11000.042
1v9lA11000.045
2tmgA11000.048

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