GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DHH - DHH family
Pfam: PF01368 (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: 145
Sequences: 4392
Seq/Len: 30.29
HH_delta: 0.148 (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
28_A32_K0.85052.990
118_S143_G0.804052.827
12_G20_G0.72132.536
12_G24_A0.671172.360
30_I125_L0.638282.244
59_F81_L0.588752.070
79_E89_V0.553041.944
29_K136_I0.544361.914
8_I65_L0.541151.903
65_L88_K0.537751.891
10_I69_V0.521851.835
30_I122_A0.517281.819
120_L123_E0.514091.807
6_E64_D0.512441.802
8_I36_K0.508141.786
81_L85_K0.495941.744
33_R133_D0.490141.723
18_A142_A0.478711.683
7_R64_D0.478051.681
31_L36_K0.47741.678
6_E88_K0.462341.625
109_Y120_L0.445791.567
133_D136_I0.443881.561
30_I34_L0.438691.542
26_A115_G0.437671.539
122_A126_K0.437311.537
10_I28_A0.43731.537
115_G119_T0.429381.510
10_I27_L0.422111.484
27_L67_I0.421431.482
26_A140_L0.407841.434
5_A8_I0.399481.404
96_Q105_N0.397451.397
29_K33_R0.39551.390
9_L40_V0.388281.365
17_D95_H0.379731.335
45_E48_P0.37791.329
56_L59_F0.373691.314
70_D94_H0.370661.303
68_L71_C0.36331.277
23_S117_T0.360451.267
28_A38_V0.352961.241
22_G143_G0.347481.222
62_N85_K0.344661.212
140_L144_I0.343111.206
116_S119_T0.342541.204
17_D70_D0.335571.180
42_P49_H0.33221.168
27_L118_S0.331121.164
112_E116_S0.329821.160
55_V81_L0.329381.158
26_A136_I0.32911.157
113_S143_G0.326291.147
23_S69_V0.326171.147
123_E127_E0.322321.133
54_F57_K0.319811.124
76_R100_E0.317711.117
92_I114_A0.31351.102
70_D95_H0.312981.100
7_R40_V0.310591.092
27_L31_L0.308581.085
9_L61_M0.306031.076
92_I121_V0.305631.075
66_I87_I0.302091.062
76_R98_G0.299851.054
115_G143_G0.29941.053
71_C77_D0.297561.046
55_V59_F0.296881.044
9_L63_E0.296771.043
53_L58_Y0.288951.016
77_D81_L0.285181.003
123_E126_K0.284691.001
24_A41_I0.282030.992
114_A120_L0.281640.990
8_I67_I0.279410.982
134_K138_T0.278970.981
49_H52_F0.278830.980
137_A140_L0.276080.971
13_H95_H0.275030.967
29_K32_K0.273640.962
17_D94_H0.270760.952
114_A123_E0.27040.951
7_R39_T0.26790.942
69_V118_S0.267890.942
29_K133_D0.262840.924
10_I24_A0.261270.919
7_R38_V0.260210.915
11_V66_I0.26010.914
70_D93_D0.260040.914
35_G38_V0.258340.908
14_I79_E0.25610.900
13_H17_D0.25220.887
29_K135_E0.252040.886
124_M127_E0.251080.883
65_L90_I0.248670.874
69_V117_T0.243130.855
132_I137_A0.23910.841
9_L64_D0.238670.839
118_S121_V0.238590.839
17_D93_D0.237940.837
27_L121_V0.237380.835
92_I117_T0.237270.834
118_S122_A0.237240.834
76_R80_K0.235540.828
21_L25_I0.235320.827
55_V77_D0.22830.803
114_A119_T0.227010.798
13_H70_D0.223920.787
9_L39_T0.22370.786
25_I139_L0.223690.786
82_E87_I0.223240.785
92_I124_M0.221610.779
68_L92_I0.221560.779
55_V78_G0.221280.778
30_I128_L0.221070.777
18_A22_G0.220550.775
53_L57_K0.219460.772
66_I89_V0.216630.762
116_S122_A0.215110.756
30_I136_I0.21480.755
46_G52_F0.214790.755
77_D80_K0.214730.755
55_V58_Y0.214010.752
118_S144_I0.213510.751
82_E89_V0.212970.749
124_M128_L0.210820.741
22_G139_L0.210180.739
56_L60_E0.20990.738
29_K139_L0.204920.720
132_I140_L0.204450.719
26_A121_V0.204270.718
11_V78_G0.203160.714
60_E135_E0.201920.710
12_G69_V0.200980.707
48_P51_Y0.200390.705
27_L69_V0.200070.703
132_I136_I0.19870.699
26_A118_S0.198340.697
33_R56_L0.197940.696
13_H44_P0.197730.695
79_E91_I0.197420.694
22_G26_A0.196750.692
112_E123_E0.195630.688
46_G50_E0.194990.686
120_L126_K0.193320.680
74_P98_G0.19320.679
12_G43_I0.192910.678
25_I28_A0.191030.672
9_L41_I0.189950.668
67_I90_I0.189350.666
68_L91_I0.187990.661
114_A117_T0.187190.658
82_E85_K0.186040.654
28_A39_T0.185920.654
135_E139_L0.185260.651
11_V77_D0.184780.650
97_P109_Y0.183470.645
68_L104_P0.183390.645
27_L122_A0.183030.643
68_L77_D0.181850.639
12_G71_C0.181280.637
42_P57_K0.180890.636
117_T121_V0.180750.635
138_T142_A0.179810.632
18_A71_C0.179050.629
119_T123_E0.178990.629
121_V140_L0.178780.629
38_V67_I0.178740.628
11_V57_K0.178620.628
122_A136_I0.178480.627
105_N110_I0.177720.625
8_I31_L0.177590.624
91_I104_P0.177210.623
14_I23_S0.176760.621
58_Y66_I0.176060.619
5_A64_D0.175780.618
44_P50_E0.175730.618
33_R135_E0.17530.616
28_A40_V0.174810.615
111_D120_L0.174680.614
14_I46_G0.173740.611
106_D110_I0.173270.609
5_A36_K0.172560.607
112_E120_L0.172320.606
25_I54_F0.171640.603
76_R83_E0.171250.602
73_S114_A0.171190.602
105_N111_D0.170660.600
54_F58_Y0.16970.597
33_R136_I0.168320.592
14_I44_P0.168320.592
11_V42_P0.167640.589
46_G49_H0.16710.587
53_L56_L0.166840.587
57_K60_E0.165070.580
77_D100_E0.164650.579
57_K61_M0.164610.579
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
3dmaA0.979399.90.148
3devA0.972499.90.165
1wpnA0.951799.90.208
2hawA0.951799.90.213
1k20A0.944899.90.219
2eb0A0.896699.80.255
2qb7A0.965599.80.272
2zxrA0.958699.80.285
3g1wA0.917242.50.891
1wzuA0.855227.80.9

Page generated in 0.0331 seconds.