GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
ELFV_dehydrog - GlutamateLeucinePhenylalanineValine dehydrogenase
Pfam: PF00208 (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. )
Clan: CL0063
Length: 244
Sequences: 2518
Seq/Len: 10.32
HH_delta: 0.059 (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
51_L56_A0.897764.120
36_A115_C0.730753.353
37_I48_A0.654653.004
112_S135_L0.558412.562
136_I158_I0.546922.510
115_C140_A0.545522.503
61_V79_L0.508132.332
48_A61_V0.481452.209
157_E161_E0.474412.177
114_D137_K0.473882.175
34_R57_K0.466872.142
20_A23_E0.463962.129
18_I144_V0.457032.097
5_G195_E0.456282.094
81_R85_E0.45582.092
81_R86_R0.449052.061
75_D78_E0.446642.050
14_V146_G0.441682.027
128_N131_N0.439012.015
129_E154_E0.435812.000
20_A207_D0.433191.988
197_E201_K0.428931.968
136_I140_A0.422891.941
49_R53_E0.421531.934
234_E238_A0.399561.833
24_H214_L0.398471.828
35_V56_A0.395041.813
151_L159_L0.394391.810
196_E200_E0.381061.749
216_R220_E0.377141.731
35_V51_L0.37651.728
215_E219_E0.372671.710
64_S83_K0.370551.700
24_H218_E0.367321.686
71_P102_E0.366121.680
30_L56_A0.355741.632
60_A110_I0.353311.621
111_L118_L0.349351.603
219_E234_E0.348411.599
167_I172_A0.346081.588
19_E23_E0.34231.571
147_A150_P0.338381.553
19_E203_E0.336991.546
216_R234_E0.331471.521
211_K215_E0.329431.512
170_F229_Y0.32911.510
17_A172_A0.328561.508
24_H210_F0.326251.497
144_V172_A0.321761.476
210_F224_L0.316051.450
60_A113_V0.315491.448
132_A158_I0.31481.445
130_D133_P0.314391.443
19_E54_L0.313331.438
20_A211_K0.311971.432
80_L84_E0.30361.393
194_T197_E0.303111.391
222_I227_A0.300521.379
36_A60_A0.298921.372
210_F214_L0.298781.371
14_V144_V0.29451.351
70_D93_Y0.290781.334
43_V146_G0.290221.332
67_A104_I0.28971.329
47_A121_C0.288841.325
15_A54_L0.288751.325
21_A142_I0.286851.316
187_N192_F0.286331.314
158_I162_R0.284291.305
222_I230_I0.281751.293
105_P109_E0.280871.289
88_S92_D0.280531.287
47_A119_I0.27911.281
136_I162_R0.274811.261
223_S226_Q0.274191.258
129_E133_P0.274071.258
59_V69_Y0.269741.238
51_L58_V0.268241.231
118_L126_V0.265951.220
65_S103_Y0.265391.218
16_Y199_F0.261151.198
156_D225_R0.260951.197
35_V119_I0.259321.190
35_V117_I0.254811.169
133_P158_I0.253831.165
12_Y50_F0.252341.158
48_A79_L0.250281.148
22_L117_I0.250221.148
28_D33_K0.24871.141
78_E93_Y0.24831.139
203_E207_D0.248281.139
157_E160_R0.247411.135
129_E158_I0.244191.121
204_E208_R0.241911.110
52_A58_V0.238971.097
216_R231_L0.238361.094
222_I226_Q0.23831.094
27_G33_K0.238021.092
233_F236_V0.238011.092
49_R80_L0.236781.087
160_R223_S0.236041.083
208_R212_R0.234251.075
14_V18_I0.22761.044
34_R116_D0.226391.039
185_L189_Q0.224551.030
45_S80_L0.224321.029
144_V167_I0.223351.025
151_L155_A0.222271.020
12_Y199_F0.219831.009
36_A59_V0.219811.009
67_A106_N0.219351.007
82_I86_R0.218521.003
16_Y203_E0.21851.003
15_A51_L0.218311.002
177_V180_S0.216620.994
21_A167_I0.216460.993
93_Y101_A0.216280.992
127_I159_L0.215740.990
34_R71_P0.215690.990
48_A76_V0.215210.988
94_P101_A0.215210.988
14_V119_I0.215010.987
74_L101_A0.213860.981
17_A213_V0.213110.978
88_S91_D0.211760.972
127_I151_L0.211130.969
133_P137_K0.20990.963
123_L126_V0.208770.958
111_L126_V0.208690.958
220_E230_I0.208130.955
71_P114_D0.207670.953
186_Q193_W0.207550.952
22_L30_L0.205690.944
136_I164_I0.205620.944
6_R42_N0.205440.943
46_H50_F0.203790.935
216_R230_I0.203360.933
159_L164_I0.2030.932
217_A220_E0.20270.930
142_I165_L0.202370.929
52_A77_E0.201970.927
158_I161_E0.20180.926
65_S88_S0.201230.923
24_H211_K0.20040.920
48_A58_V0.200130.918
178_I205_I0.199120.914
46_H49_R0.198570.911
19_E30_L0.198020.909
59_V115_C0.197040.904
3_S193_W0.195290.896
14_V47_A0.195280.896
112_S131_N0.194880.894
23_E28_D0.194780.894
171_L213_V0.194610.893
30_L35_V0.19360.888
28_D141_K0.193440.888
128_N151_L0.193120.886
14_V121_C0.192460.883
28_D32_G0.192290.882
34_R114_D0.192180.882
82_I93_Y0.191090.877
36_A113_V0.189920.871
127_I143_I0.188040.863
218_E223_S0.186880.858
165_L224_L0.186460.856
141_K164_I0.185540.851
78_E81_R0.185010.849
35_V58_V0.184920.849
213_V228_A0.184850.848
77_E80_L0.184190.845
18_I119_I0.184160.845
45_S84_E0.181880.835
62_S110_I0.181550.833
119_I144_V0.181440.833
40_F76_V0.180170.827
11_G47_A0.178560.819
231_L235_R0.177870.816
214_L218_E0.177570.815
59_V113_V0.177540.815
34_R59_V0.176720.811
114_D140_A0.176340.809
107_D112_S0.175550.806
143_I159_L0.175070.803
109_E112_S0.174950.803
68_I90_V0.174770.802
3_S186_Q0.174570.801
17_A167_I0.173850.798
82_I94_P0.173640.797
23_E207_D0.17330.795
76_V80_L0.17290.793
21_A165_L0.17260.792
67_A112_S0.171660.788
200_E204_E0.171470.787
86_R92_D0.171350.786
40_F79_L0.168950.775
10_T13_G0.168820.775
11_G43_V0.168220.772
51_L119_I0.166610.765
169_D224_L0.166240.763
180_S183_E0.166030.762
50_F199_F0.16590.761
69_Y102_E0.165870.761
7_S46_H0.165360.759
18_I142_I0.165140.758
127_I166_V0.165070.757
6_R180_S0.164730.756
179_V198_V0.163230.749
47_A51_L0.163220.749
151_L156_D0.162050.744
124_G149_G0.161590.741
193_W198_V0.161470.741
136_I143_I0.161270.740
16_Y19_E0.160770.738
70_D74_L0.159980.734
230_I233_F0.159120.730
74_L79_L0.157790.724
128_N152_T0.157630.723
70_D101_A0.15660.719
63_D83_K0.156040.716
24_H215_E0.15590.715
116_D141_K0.1550.711
233_F237_A0.154280.708
110_I113_V0.153050.702
3_S179_V0.152630.700
52_A59_V0.152560.700
217_A224_L0.152330.699
27_G141_K0.152210.698
153_P156_D0.151940.697
63_D66_G0.150720.692
151_L169_D0.150130.689
79_L83_K0.149510.686
36_A67_A0.14940.686
66_G106_N0.149060.684
22_L27_G0.148940.683
215_E218_E0.147930.679
232_A236_V0.147720.678
18_I117_I0.147380.676
133_P161_E0.147350.676
143_I155_A0.147260.676
28_D31_E0.147140.675
43_V64_S0.146870.674
57_K72_D0.145950.670
38_Q126_V0.145720.669
68_I79_L0.145690.669
174_A178_I0.144630.664
197_E200_E0.144550.663
105_P110_I0.143880.660
19_E207_D0.143820.660
214_L224_L0.143560.659
5_G44_G0.143170.657
181_Y184_W0.142810.655
52_A76_V0.142280.653
10_T176_G0.142210.653
140_A143_I0.142190.652
146_G172_A0.142080.652
21_A144_V0.141840.651
3_S183_E0.141020.647
40_F65_S0.140510.645
22_L33_K0.140240.644
91_D103_Y0.140070.643
33_K117_I0.140050.643
129_E159_L0.139820.642
173_N177_V0.13980.642
181_Y185_L0.139760.641
106_N110_I0.139580.640
78_E82_I0.139360.639
9_A202_L0.139280.639
67_A113_V0.139140.638
210_F213_V0.138750.637
6_R9_A0.138660.636
11_G146_G0.137750.632
156_D160_R0.137740.632
213_V224_L0.137440.631
15_A50_F0.137430.631
61_V74_L0.137420.631
80_L83_K0.137210.630
37_I61_V0.136750.628
49_R76_V0.13670.627
7_S11_G0.136050.624
81_R84_E0.135860.623
25_L165_L0.135710.623
194_T204_E0.135450.622
9_A179_V0.13490.619
109_E131_N0.134020.615
83_K103_Y0.133860.614
79_L90_V0.133780.614
6_R179_V0.133660.613
129_E155_A0.13350.613
10_T42_N0.132670.609
195_E199_F0.13210.606
53_E77_E0.131960.606
9_A193_W0.131860.605
42_N180_S0.131840.605
118_L135_L0.131540.604
186_Q198_V0.131360.603
15_A30_L0.131310.603
225_R229_Y0.130760.600
212_R231_L0.130710.600
24_H165_L0.130520.599
132_A155_A0.130470.599
70_D75_D0.130380.598
156_D166_V0.130370.598
69_Y113_V0.130320.598
7_S45_S0.129970.596
82_I92_D0.129680.595
45_S83_K0.129620.595
166_V225_R0.129560.595
106_N109_E0.129530.594
118_L140_A0.129370.594
127_I169_D0.128650.590
147_A173_N0.128460.589
8_E11_G0.128140.588
9_A199_F0.128130.588
65_S90_V0.127990.587
185_L198_V0.127950.587
140_A151_L0.127210.584
102_E114_D0.127080.583
51_L117_I0.126780.582
9_A42_N0.126720.581
217_A227_A0.126640.581
129_E151_L0.12660.581
12_Y203_E0.126550.581
148_N173_N0.126490.580
189_Q197_E0.126360.580
205_I208_R0.126240.579
94_P163_G0.126190.579
10_T173_N0.125960.578
226_Q230_I0.125180.574
232_A235_R0.125120.574
91_D94_P0.124820.573
121_C146_G0.124530.571
50_F54_L0.124380.571
12_Y49_R0.124180.570
218_E221_G0.124030.569
43_V173_N0.124020.569
17_A21_A0.123860.568
119_I146_G0.123260.566
131_N155_A0.123130.565
63_D90_V0.12290.564
177_V183_E0.122650.563
42_N179_V0.12240.562
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
3r3jA0.98361000.059
3k92A0.95081000.06
4fccA0.97541000.067
2bmaA0.98361000.075
3mw9A0.95491000.081
3aogA0.95491000.087
1v9lA0.95491000.089
3aoeE0.93851000.094
2yfqA0.95491000.096
2tmgA0.95491000.106

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