GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
NB-ARC - NB-ARC domain
Pfam: PF00931 (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: CL0023
Length: 287
Sequences: 10301
Seq/Len: 35.89
HH_delta: 0.231 (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
36_A135_T0.882943.453
162_A199_L0.857223.352
158_S161_E0.820883.210
28_G137_R0.790183.090
241_E245_D0.676982.647
159_E190_E0.623192.437
9_K42_D0.622232.433
159_E186_K0.615912.409
40_A106_V0.605572.368
38_Q42_D0.604342.363
139_R153_E0.587732.298
24_I36_A0.579332.265
166_F203_A0.564532.208
8_L39_V0.547072.139
182_E186_K0.533352.086
248_P251_L0.522842.045
9_K39_V0.522362.043
5_I39_V0.514612.012
163_L186_K0.514222.011
30_I195_L0.498711.950
40_A52_V0.496891.943
157_L165_L0.493151.928
26_G30_I0.480441.879
50_D102_R0.471281.843
161_E164_E0.46521.819
110_V134_V0.465161.819
163_L185_A0.461971.807
187_E190_E0.457421.789
38_Q41_R0.451341.765
170_A203_A0.440811.724
36_A106_V0.438721.716
6_E10_D0.4351.701
164_E168_K0.432981.693
222_L226_L0.403151.577
247_L255_F0.392941.537
103_C130_S0.392911.536
24_I154_L0.389241.522
162_A194_G0.383041.498
162_A165_L0.381591.492
54_W106_V0.37941.484
156_P193_G0.378181.479
7_K11_W0.377841.478
30_I154_L0.377521.476
189_V199_L0.377091.475
162_A189_V0.374021.463
244_Y252_R0.367741.438
34_T38_Q0.365441.429
158_S162_A0.362191.416
27_M30_I0.360121.408
12_L131_K0.358341.401
156_P195_L0.358331.401
159_E194_G0.357521.398
187_E191_K0.354141.385
169_R200_K0.353311.382
165_L199_L0.347161.358
33_T108_D0.34531.350
45_I48_R0.345091.349
8_L22_V0.340581.332
167_K182_E0.337681.321
88_E92_D0.336151.315
25_V153_E0.335791.313
252_R256_L0.335761.313
50_D101_K0.335471.312
49_F104_L0.331651.297
251_L254_C0.328441.284
5_I9_K0.325841.274
55_V70_I0.317931.243
163_L167_K0.31691.239
163_L189_V0.314611.230
68_E90_L0.311561.218
65_Q69_Q0.310941.216
69_Q73_Q0.308771.207
217_E220_E0.308671.207
29_G32_K0.308581.207
159_E163_L0.308371.206
23_A136_T0.308281.206
7_K10_D0.305981.197
35_L154_L0.30591.196
46_K52_V0.301571.179
37_R41_R0.300851.176
24_I35_L0.300121.174
186_K190_E0.299061.169
13_L48_R0.299041.169
9_K13_L0.297721.164
92_D95_R0.295751.157
169_R204_S0.295281.155
181_L185_A0.293241.147
36_A133_L0.291831.141
25_V151_V0.290731.137
254_C257_Y0.289811.133
211_T214_E0.289481.132
5_I42_D0.284851.114
157_L161_E0.282031.103
62_S65_Q0.281351.100
64_E68_E0.279541.093
56_S109_D0.279131.092
218_A221_E0.27911.091
27_M195_L0.278471.089
223_E226_L0.27711.084
67_L90_L0.276051.080
254_C258_L0.275731.078
121_E125_S0.275721.078
86_D89_E0.273971.071
58_S109_D0.273241.069
187_E220_E0.270941.060
98_L103_C0.270921.059
10_D14_D0.270621.058
102_R129_G0.269841.055
49_F131_K0.267141.045
157_L196_P0.265751.039
93_Q96_E0.263781.032
183_D187_E0.263691.031
71_L76_E0.263511.030
11_W22_V0.2611.021
216_E220_E0.260991.021
39_V45_I0.259841.016
253_R257_Y0.259221.014
166_F189_V0.25921.014
51_G101_K0.258781.012
104_L133_L0.257681.008
156_P194_G0.257011.005
91_Q95_R0.256531.003
7_K152_I0.254820.996
189_V192_C0.254060.994
166_F169_R0.253760.992
28_G109_D0.253740.992
181_L184_L0.251740.984
37_R40_A0.251090.982
109_D137_R0.250930.981
185_A189_V0.250560.980
244_Y256_L0.250520.980
7_K150_K0.249850.977
199_L203_A0.249440.975
244_Y255_F0.24850.972
157_L194_G0.248130.970
212_V216_E0.246660.965
11_W152_I0.246310.963
57_L61_P0.246190.963
11_W150_K0.245830.961
187_E223_E0.24510.958
162_A166_F0.244970.958
5_I38_Q0.244470.956
166_F170_A0.24420.955
9_K45_I0.244060.954
165_L169_R0.243560.952
64_E87_I0.242680.949
53_I56_S0.242610.949
5_I35_L0.240890.942
96_E99_K0.240640.941
94_L98_L0.24060.941
192_C202_I0.240570.941
163_L182_E0.240350.940
26_G29_G0.240310.940
200_K204_S0.236280.924
254_C262_P0.236030.923
214_E217_E0.235630.921
222_L225_S0.234880.919
184_L187_E0.23480.918
167_K185_A0.23410.915
11_W14_D0.232810.910
55_V66_L0.232740.910
105_L132_I0.232730.910
257_Y261_F0.230840.903
115_D118_E0.229490.897
195_L199_L0.229080.896
95_R99_K0.228720.894
112_D115_D0.228620.894
258_L262_P0.227720.891
192_C198_A0.226950.887
92_D96_E0.226660.886
195_L198_A0.226190.885
30_I156_P0.22390.876
31_G35_L0.223710.875
72_R89_E0.22370.875
209_K246_S0.222760.871
6_E9_K0.222620.871
256_L260_I0.222580.870
205_Y209_K0.222450.870
111_W137_R0.22170.867
23_A134_V0.221360.866
203_A207_R0.217110.849
87_I91_Q0.21710.849
235_S238_S0.216410.846
58_S61_P0.216350.846
28_G239_A0.215890.844
28_G111_W0.215590.843
198_A201_L0.215430.842
221_E224_N0.214860.840
187_E219_L0.213760.836
258_L261_F0.210830.824
183_D186_K0.210150.822
189_V194_G0.210050.821
201_L204_S0.209780.820
240_L243_S0.209760.820
209_K214_E0.208670.816
179_E182_E0.208050.814
8_L35_L0.207550.812
74_L97_L0.206660.808
13_L45_I0.205870.805
34_T37_R0.204560.800
188_I202_I0.202720.793
74_L94_L0.202680.793
137_R243_S0.202280.791
97_L101_K0.201750.789
160_E164_E0.20170.789
205_Y218_A0.201060.786
216_E222_L0.200150.783
198_A203_A0.199770.781
197_L201_L0.199140.779
253_R256_L0.197910.774
166_F171_G0.197710.773
23_A151_V0.197340.772
54_W57_L0.197030.770
146_G149_D0.196290.768
211_T216_E0.196210.767
251_L258_L0.196130.767
65_Q68_E0.196090.767
184_L216_E0.196060.767
39_V133_L0.195810.766
53_I73_Q0.19550.765
187_E216_E0.195080.763
109_D112_D0.193020.755
68_E72_R0.192840.754
257_Y260_I0.192720.754
28_G243_S0.19250.753
165_L196_P0.192370.752
188_I199_L0.191980.751
190_E194_G0.191150.747
220_E223_E0.19070.746
196_P199_L0.190520.745
241_E244_Y0.189820.742
57_L107_L0.189820.742
91_Q118_E0.189780.742
37_R54_W0.189590.741
234_R238_S0.189040.739
214_E218_A0.188910.739
183_D212_V0.188720.738
107_L255_F0.187360.733
67_L70_I0.186870.731
34_T200_K0.18650.729
40_A104_L0.186090.728
239_A246_S0.185540.726
243_S255_F0.18510.724
152_I155_E0.18490.723
66_L70_I0.184830.723
215_W219_L0.184790.723
35_L39_V0.18390.719
56_S62_S0.182460.714
166_F185_A0.182220.713
221_E225_S0.182170.712
20_R150_K0.181860.711
51_G103_C0.181510.710
139_R143_G0.18090.707
164_E167_K0.180820.707
108_D135_T0.180010.704
117_E121_E0.180.704
42_D45_I0.180.704
240_L244_Y0.179830.703
102_R131_K0.178850.699
26_G32_K0.178710.699
28_G136_T0.178620.699
249_D252_R0.17830.697
255_F259_S0.178290.697
159_E189_V0.178180.697
102_R130_S0.177360.694
32_K137_R0.177220.693
30_I196_P0.177190.693
67_L91_Q0.177110.693
36_A40_A0.176740.691
212_V218_A0.176450.690
115_D120_R0.176370.690
8_L152_I0.17630.689
28_G197_L0.176110.689
10_D13_L0.176020.688
68_E83_D0.175990.688
108_D137_R0.175460.686
75_G79_S0.175350.686
20_R131_K0.175140.685
191_K223_E0.174350.682
90_L97_L0.173890.680
53_I105_L0.173510.679
84_P93_Q0.173510.679
14_D20_R0.172830.676
184_L188_I0.171920.672
57_L62_S0.171810.672
218_A224_N0.171580.671
180_D183_D0.171130.669
165_L200_K0.170950.669
206_L215_W0.170810.668
141_V145_L0.169950.665
254_C260_I0.16980.664
17_N128_S0.169790.664
108_D111_W0.16950.663
235_S239_A0.169390.662
53_I74_L0.168840.660
182_E185_A0.168550.659
136_T142_A0.168450.659
23_A142_A0.167990.657
219_L225_S0.167860.656
93_Q97_L0.167810.656
122_P125_S0.167320.654
198_A236_V0.167240.654
56_S59_K0.167090.653
116_L123_L0.166950.653
195_L201_L0.166750.652
123_L130_S0.166630.652
33_T37_R0.166410.651
106_V135_T0.16620.650
56_S60_N0.166150.650
159_E162_A0.165850.649
192_C199_L0.165540.647
29_G33_T0.165510.647
19_V23_A0.165290.646
174_E182_E0.165220.646
76_E79_S0.164590.644
191_K220_E0.164480.643
57_L66_L0.164290.642
22_V152_I0.164110.642
204_S207_R0.163810.641
234_R237_F0.163080.638
75_G78_D0.162510.636
239_A243_S0.161730.632
117_E120_R0.161390.631
250_E253_R0.161230.630
162_A192_C0.161140.630
90_L94_L0.160590.628
144_S149_D0.160310.627
142_A146_G0.159820.625
8_L11_W0.159060.622
166_F198_A0.158080.618
103_C122_P0.158050.618
239_A242_L0.157980.618
56_S263_E0.157720.617
95_R125_S0.157670.617
122_P126_F0.157480.616
45_I49_F0.157380.615
256_L262_P0.157190.615
118_E121_E0.156890.614
29_G197_L0.156640.613
14_D18_E0.156550.612
202_I219_L0.15650.612
7_K155_E0.156390.612
206_L210_S0.156190.611
71_L90_L0.156050.610
89_E92_D0.155550.608
215_W222_L0.154940.606
32_K197_L0.154380.604
247_L252_R0.153980.602
154_L157_L0.15390.602
215_W218_A0.153730.601
76_E92_D0.153660.601
19_V131_K0.153630.601
79_S83_D0.152580.597
31_G34_T0.152390.596
110_V113_E0.152250.595
25_V136_T0.152030.595
94_L97_L0.151870.594
171_G174_E0.15180.594
196_P206_L0.151530.593
223_E238_S0.151330.592
116_L122_P0.151220.591
197_L200_K0.151210.591
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
2a5yB0.93381000.231
3sfzA0.95471000.257
1vt4I0.88851000.287
1z6tA0.95121000.292
2qenA0.89299.80.488
1w5sA0.968699.80.491
2fnaA0.89299.70.518
2v1uA0.968699.70.525
1fnnA0.965299.70.537
2qbyA0.968699.70.537

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