GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Aldolase_II - Class II Aldolase and Adducin N-terminal domain
Pfam: PF00596 (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: 184
Sequences: 3266
Seq/Len: 17.75
HH_delta: 0.037 (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
53_D58_N1.16724.832
164_K168_E0.729653.021
32_F77_A0.629312.605
33_L49_I0.614962.546
31_R51_V0.609332.523
1_Q5_E0.545712.259
4_A46_P0.536152.220
2_E167_E0.534792.214
96_Y181_E0.49762.060
135_E139_E0.497552.060
86_V162_W0.484852.007
151_A176_L0.484572.006
107_P123_E0.479311.984
95_P181_E0.453121.876
88_A166_L0.450871.867
125_P149_R0.442021.830
33_L51_V0.430491.782
165_S168_E0.429221.777
27_V33_L0.428011.772
90_I169_A0.42541.761
55_D58_N0.417381.728
78_A82_A0.412751.709
45_T48_D0.410821.701
4_A8_R0.404141.673
78_A139_E0.397681.646
78_A81_R0.390221.616
93_H157_H0.389761.614
159_V176_L0.388181.607
87_N165_S0.386561.600
128_P155_R0.382681.584
91_H157_H0.381011.577
55_D81_R0.380311.575
31_R60_L0.370261.533
25_V166_L0.366491.517
140_A143_E0.357971.482
3_L49_I0.354971.470
163_G168_E0.350741.452
77_A81_R0.349131.445
92_T173_A0.343571.422
161_V173_A0.34221.417
48_D67_G0.337451.397
1_Q46_P0.335031.387
95_P99_A0.334371.384
8_R12_E0.334281.384
13_R174_E0.332591.377
105_G155_R0.326721.353
9_R13_R0.319981.325
34_I70_S0.319611.323
139_E143_E0.317681.315
3_L23_I0.305511.265
108_L180_A0.303321.256
82_A142_A0.301771.249
83_R86_V0.300331.243
32_F54_L0.295641.224
44_L48_D0.29531.223
163_G172_R0.294591.220
27_V51_V0.293971.217
82_A146_G0.292371.210
25_V88_A0.28881.196
159_V173_A0.28871.195
154_L160_V0.281411.165
98_T101_S0.281171.164
36_P39_V0.279691.158
97_A159_V0.277741.150
151_A161_V0.274781.138
107_P126_V0.271481.124
62_G66_G0.270121.118
75_L160_V0.26971.117
6_A170_F0.267321.107
177_E181_E0.267061.106
130_A140_A0.266881.105
7_C23_I0.26681.105
87_N164_K0.26561.100
9_R12_E0.265291.098
79_I86_V0.263961.093
53_D60_L0.262411.086
114_E117_R0.261081.081
143_E146_G0.259751.075
52_V73_T0.258291.069
14_G181_E0.258081.068
108_L153_L0.252721.046
94_P97_A0.252461.045
4_A49_I0.252231.044
96_Y99_A0.251871.043
128_P143_E0.251011.039
75_L141_I0.250021.035
178_R181_E0.249151.032
109_P183_Q0.246061.019
39_V67_G0.244231.011
39_V48_D0.244111.011
96_Y177_E0.243521.008
72_E137_L0.243121.007
150_K172_R0.239180.990
2_E25_V0.237650.984
145_L162_W0.234080.969
36_P49_I0.233390.966
37_S70_S0.232810.964
22_N70_S0.232080.961
144_A152_V0.23130.958
113_Q116_A0.230540.954
7_C41_K0.230120.953
10_L90_I0.229990.952
79_I145_L0.228490.946
80_Y89_V0.227950.944
24_S89_V0.227620.942
128_P140_A0.227390.941
123_E148_D0.225720.935
136_E139_E0.225370.933
43_E167_E0.224590.930
10_L170_F0.223440.925
5_E43_E0.223070.924
22_N72_E0.220050.911
26_R87_N0.219040.907
124_V176_L0.218220.903
10_L23_I0.217140.899
54_L81_R0.21660.897
145_L152_V0.216170.895
95_P178_R0.213130.882
35_T49_I0.212970.882
2_E5_E0.212960.882
83_R162_W0.211870.877
24_S80_Y0.211290.875
30_D54_L0.210510.872
9_R170_F0.210150.870
22_N35_T0.209830.869
32_F73_T0.209650.868
6_A166_L0.207740.860
34_I72_E0.207330.858
141_I154_L0.207130.858
108_L179_A0.206390.854
101_S153_L0.204670.847
127_V140_A0.204170.845
98_T158_G0.203770.844
100_L183_Q0.203520.843
35_T80_Y0.202650.839
176_L180_A0.202350.838
174_E178_R0.199310.825
59_I62_G0.198840.823
92_T159_V0.198730.823
76_H80_Y0.197240.817
3_L33_L0.197160.816
22_N157_H0.19680.815
94_P177_E0.19610.812
110_P115_A0.195420.809
40_D43_E0.19390.803
52_V77_A0.193350.800
81_R142_A0.191290.792
19_T37_S0.190640.789
74_P138_A0.189940.786
111_I183_Q0.189870.786
123_E149_R0.188440.780
161_V172_R0.188150.779
130_A134_S0.185070.766
150_K168_E0.184840.765
3_L7_C0.18470.765
129_Y154_L0.18370.761
125_P152_V0.183240.759
40_D129_Y0.183210.759
4_A44_L0.183090.758
22_N91_H0.181770.753
124_V151_A0.181360.751
168_E171_Y0.181220.750
11_Y41_K0.177470.735
16_V23_I0.175830.728
90_I173_A0.175740.728
11_Y42_D0.175530.727
74_P135_E0.175310.726
97_A180_A0.17290.716
50_V59_I0.171990.712
172_R176_L0.171590.710
29_G54_L0.171130.708
36_P50_V0.170910.708
57_G77_A0.169590.702
127_V154_L0.169520.702
85_D164_K0.168540.698
72_E157_H0.168320.697
103_L106_E0.168310.697
88_A169_A0.167980.695
78_A142_A0.167510.694
97_A153_L0.167190.692
83_R146_G0.166960.691
32_F52_V0.166910.691
13_R18_G0.166710.690
15_L177_E0.166560.690
15_L109_P0.166220.688
167_E171_Y0.165980.687
136_E140_A0.165830.687
7_C35_T0.165640.686
82_A143_E0.165560.685
10_L15_L0.165480.685
94_P173_A0.165440.685
17_D20_G0.164580.681
132_P151_A0.163530.677
127_V130_A0.162570.673
38_G157_H0.162430.672
35_T166_L0.162350.672
37_S72_E0.161650.669
17_D178_R0.161560.669
140_A144_A0.161520.669
35_T44_L0.160760.666
54_L58_N0.160730.665
24_S34_I0.160350.664
22_N37_S0.160320.664
74_P78_A0.160080.663
51_V60_L0.160040.663
37_S71_S0.158850.658
43_E48_D0.158570.656
66_G69_P0.158380.656
78_A135_E0.158360.656
61_E66_G0.157380.652
153_L159_V0.156190.647
91_H158_G0.156140.646
83_R145_L0.155680.645
127_V144_A0.155480.644
11_Y17_D0.155290.643
106_E109_P0.154660.640
21_G41_K0.154130.638
83_R142_A0.153630.636
97_A176_L0.153440.635
20_G37_S0.152210.630
130_A133_G0.152160.630
137_L141_I0.151550.627
24_S76_H0.150670.624
59_I68_K0.150040.621
25_V49_I0.149670.620
139_E142_A0.148790.616
130_A148_D0.148540.615
44_L49_I0.147780.612
5_E8_R0.147550.611
28_P87_N0.146840.608
32_F81_R0.146160.605
28_P31_R0.144590.599
72_E138_A0.144330.598
18_G171_Y0.143870.596
107_P153_L0.143730.595
20_G98_T0.143460.594
135_E138_A0.143250.593
102_C111_I0.143070.592
178_R182_I0.142890.592
53_D57_G0.141980.588
72_E76_H0.141890.587
99_A182_I0.141880.587
28_P146_G0.141240.585
100_L180_A0.14080.583
84_P106_E0.140480.582
71_S132_P0.139860.579
129_Y133_G0.139850.579
168_E172_R0.139790.579
102_C156_N0.139780.579
37_S73_T0.138760.574
102_C112_T0.138620.574
172_R175_Y0.138620.574
22_N127_V0.138280.572
179_A182_I0.138180.572
152_V160_V0.137790.570
6_A90_I0.13760.570
54_L77_A0.136980.567
20_G175_Y0.136830.566
75_L137_L0.136650.566
10_L92_T0.136440.565
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
3ocrA0.97281000.037
1e4cP0.95111000.054
1k0wA0.96741000.064
2opiA0.92931000.066
2irpA0.9621000.077
2fk5A0.92931000.078
2z7bA0.94021000.087
1pvtA0.96741000.1
2v9lA0.97281000.102
3m4rA0.91851000.163

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