GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
SNF2_N - SNF2 family N-terminal domain
Pfam: PF00176 (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: 299
Sequences: 6942
Seq/Len: 23.22
HH_delta: 0.147 (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
43_I77_I0.988844.277
143_A167_L0.917143.967
5_A41_T0.725383.137
151_S154_Y0.712523.082
77_I110_V0.659642.853
140_V146_L0.581452.515
158_R185_R0.557632.412
138_V162_A0.555972.405
42_A168_L0.55112.384
143_A183_L0.548492.372
254_R258_N0.547792.369
115_Y140_V0.546512.364
42_A139_I0.542462.346
12_R28_G0.541812.343
229_T232_D0.530722.295
74_K78_E0.529092.288
74_K112_I0.517482.238
288_R291_Q0.514042.223
34_M170_G0.505762.188
46_I61_T0.50192.171
70_L112_I0.468352.026
116_E145_R0.466412.017
6_V44_A0.457541.979
136_D163_R0.434671.880
43_I81_F0.432061.869
77_I88_V0.429581.858
74_K90_I0.413911.790
250_S253_Q0.413011.786
260_L292_V0.40431.749
118_L157_L0.403141.744
9_M45_L0.401521.737
10_L48_Y0.394411.706
249_L257_Y0.391941.695
28_G166_W0.391851.695
162_A165_R0.39131.692
64_V113_T0.390491.689
72_Q76_E0.388631.681
42_A166_W0.38611.670
284_Q287_K0.382821.656
47_S81_F0.382721.655
87_R109_D0.380961.648
258_N262_K0.375871.626
140_V157_L0.361171.562
137_R166_W0.359391.554
134_K163_R0.356131.540
76_E79_K0.354021.531
154_Y158_R0.35261.525
61_T137_R0.352511.525
116_E119_R0.349651.512
111_V135_W0.34761.503
9_M28_G0.346451.498
227_R230_K0.345691.495
43_I110_V0.344291.489
119_R153_R0.344291.489
50_K109_D0.343881.487
143_A169_S0.336221.454
196_R200_K0.335591.451
165_R186_F0.335491.451
64_V118_L0.334021.445
134_K161_R0.333721.443
221_L225_M0.332071.436
91_Y126_D0.331091.432
144_H174_Q0.327711.417
40_I80_W0.317161.372
13_E137_R0.310641.344
32_D228_R0.309881.340
69_L72_Q0.307391.330
137_R164_Y0.304931.319
62_L135_W0.303461.313
67_S114_T0.303431.312
88_V112_I0.300781.301
195_R199_K0.298651.292
131_K159_K0.291361.260
249_L253_Q0.290741.258
147_K179_D0.289231.251
146_L157_L0.287771.245
180_L221_L0.287721.244
211_Y215_E0.287681.244
145_R153_R0.28731.243
67_S116_E0.283161.225
35_G38_K0.283061.224
194_D197_S0.28281.223
32_D36_L0.282361.221
89_I108_Y0.282341.221
251_P255_E0.281531.218
46_I139_I0.281411.217
9_M166_W0.279041.207
175_N179_D0.277551.200
255_E259_E0.275421.191
63_I110_V0.274981.189
30_L226_I0.274761.188
48_Y52_E0.274731.188
146_L186_F0.274281.186
167_L183_L0.272511.179
138_V160_L0.269921.167
3_L7_R0.269231.164
1_H233_V0.26861.162
61_T136_D0.268211.160
261_L264_A0.263561.140
113_T117_T0.262981.137
149_K195_R0.261411.131
258_N261_L0.260381.126
176_S179_D0.259921.124
154_Y182_S0.259071.121
284_Q288_R0.256421.109
215_E219_E0.256291.109
62_L138_V0.254541.101
199_K204_R0.254221.100
287_K291_Q0.254211.100
98_R101_S0.253571.097
13_E45_L0.252741.093
71_S75_E0.251371.087
119_R152_K0.250161.082
70_L90_I0.249841.081
13_E166_W0.249171.078
116_E153_R0.248681.076
101_S104_Q0.246711.067
47_S51_N0.246471.066
32_D41_T0.246271.065
63_I73_W0.246211.065
7_R11_D0.245321.061
140_V186_F0.244651.058
150_D155_K0.244341.057
287_K290_R0.243431.053
248_E254_R0.242631.049
86_L110_V0.239441.036
155_K159_K0.239151.034
202_F220_L0.237471.027
8_W28_G0.237461.027
29_L183_L0.236771.024
257_Y289_L0.235691.019
230_K240_K0.234491.014
252_E255_E0.233191.009
27_G187_L0.232731.007
48_Y51_N0.231731.002
181_Y185_R0.231481.001
75_E79_K0.23121.000
283_L288_R0.230340.996
87_R108_Y0.230190.996
213_N216_R0.230140.995
74_K88_V0.228660.989
283_L287_K0.228240.987
81_F86_L0.226610.980
36_L41_T0.2260.977
201_W216_R0.225110.974
178_E199_K0.223010.965
13_E164_Y0.221550.958
6_V45_L0.221520.958
45_L137_R0.221070.956
185_R190_D0.219740.950
31_A172_P0.218250.944
39_T63_I0.218230.944
240_K253_Q0.218230.944
218_R222_S0.217830.942
108_Y111_V0.216140.935
178_E195_R0.215470.932
91_Y130_L0.215460.932
78_E88_V0.214150.926
32_D226_I0.213460.923
259_E263_E0.21330.923
5_A228_R0.211960.917
184_L192_F0.211890.916
46_I137_R0.211750.916
5_A32_D0.211730.916
253_Q257_Y0.211090.913
127_K159_K0.211070.913
5_A9_M0.21050.910
71_S74_K0.210140.909
199_K203_Y0.209640.907
92_D113_T0.208020.900
86_L109_D0.207410.897
188_N191_P0.206140.892
29_L187_L0.203760.881
197_S201_W0.203710.881
53_F56_R0.203170.879
262_K266_E0.202220.875
13_E49_L0.202030.874
152_K155_K0.202030.874
30_L33_E0.201660.872
198_F202_F0.201330.871
167_L186_F0.201150.870
153_R156_A0.200390.867
197_S200_K0.199110.861
147_K174_Q0.19890.860
66_P73_W0.198060.857
77_I112_I0.195210.844
260_L285_I0.193980.839
76_E80_W0.193870.839
170_G175_N0.193420.837
138_V186_F0.192320.832
119_R125_K0.191760.829
72_Q80_W0.191640.829
202_F217_L0.190530.824
142_E171_T0.190170.823
47_S85_S0.188780.817
212_E216_R0.188410.815
214_I218_R0.187770.812
35_G39_T0.186540.807
139_I166_W0.185780.804
46_I86_L0.185040.800
260_L264_A0.184150.796
3_L6_V0.183440.793
66_P69_L0.183350.793
34_M41_T0.182730.790
151_S155_K0.181940.787
264_A267_N0.181880.787
98_R126_D0.181090.783
101_S105_L0.180960.783
40_I44_A0.180950.783
9_M30_L0.180920.783
209_N213_N0.180740.782
207_K210_S0.179660.777
33_E230_K0.179420.776
235_K238_P0.177580.768
216_R220_L0.177470.768
93_G113_T0.177340.767
6_V10_L0.177230.767
42_A46_I0.177080.766
43_I46_I0.177020.766
8_W12_R0.176990.766
50_K86_L0.176530.764
33_E36_L0.176460.763
237_L240_K0.176230.762
149_K178_E0.176140.762
187_L191_P0.175860.761
2_Q37_G0.175630.760
200_K204_R0.175530.759
152_K156_A0.175160.758
181_Y202_F0.175150.758
189_P192_F0.174940.757
6_V48_Y0.174870.756
4_E7_R0.174690.756
127_K131_K0.174330.754
7_R10_L0.174230.754
247_V253_Q0.173840.752
184_L187_L0.173220.749
70_L92_D0.173180.749
149_K182_S0.173160.749
283_L291_Q0.173090.749
9_M42_A0.1720.744
265_R269_K0.17170.743
135_W138_V0.171170.740
267_N270_Q0.171060.740
50_K61_T0.170870.739
173_I179_D0.170140.736
177_L203_Y0.170110.736
196_R199_K0.169510.733
184_L224_F0.169050.731
102_K106_P0.168650.729
154_Y185_R0.16840.728
219_E223_E0.168190.727
174_Q179_D0.167340.724
46_I110_V0.167160.723
284_Q291_Q0.167110.723
90_I112_I0.16670.721
256_L292_V0.166660.721
141_D144_H0.166410.720
201_W213_N0.166180.719
216_R219_E0.166090.718
40_I43_I0.165570.716
179_D182_S0.165450.716
285_I288_R0.165280.715
8_W226_I0.165170.714
126_D129_D0.165020.714
119_R151_S0.164820.713
98_R102_K0.164790.713
166_W189_P0.164790.713
278_K282_L0.16470.712
106_P133_I0.163820.709
263_E266_E0.163760.708
52_E55_Q0.163580.708
73_W76_E0.161510.699
100_L104_Q0.16130.698
93_G98_R0.161270.698
259_E262_K0.161190.697
11_D24_P0.160980.696
64_V138_V0.159820.691
63_I66_P0.15970.691
198_F201_W0.159510.690
103_N106_P0.159140.688
280_S285_I0.159050.688
176_S180_L0.158940.687
147_K175_N0.158770.687
5_A8_W0.158740.687
64_V157_L0.158190.684
202_F216_R0.157910.683
65_V70_L0.157740.682
30_L41_T0.157550.681
27_G165_R0.15730.680
210_S214_I0.156670.678
142_E170_G0.156370.676
36_L233_V0.156180.676
185_R192_F0.155820.674
99_R104_Q0.155180.671
89_I104_Q0.155130.671
92_D114_T0.155020.670
207_K211_Y0.15490.670
256_L259_E0.154820.670
26_R224_F0.154630.669
89_I111_V0.154490.668
268_L271_S0.154330.668
215_E218_R0.154140.667
1_H5_A0.154080.666
65_V69_L0.153910.666
169_S172_P0.153290.663
31_A36_L0.152480.660
156_A159_K0.151970.657
87_R107_K0.151420.655
282_L285_I0.151290.654
1_H41_T0.150770.652
34_M37_G0.150770.652
34_M230_K0.150310.650
209_N212_E0.14980.648
5_A30_L0.149660.647
46_I63_I0.148750.643
78_E81_F0.14870.643
129_D133_I0.148330.642
93_G117_T0.147990.640
280_S284_Q0.147920.640
167_L187_L0.147620.638
46_I77_I0.147130.636
65_V114_T0.146660.634
280_S290_R0.146650.634
139_I168_L0.146630.634
127_K156_A0.146610.634
158_R182_S0.146590.634
62_L113_T0.14650.634
77_I81_F0.146430.633
247_V259_E0.146390.633
41_T228_R0.14630.633
241_I244_V0.146220.632
267_N281_S0.146140.632
12_R26_R0.146120.632
184_L189_P0.145350.629
9_M13_E0.144730.626
10_L13_E0.144190.624
62_L73_W0.144020.623
55_Q61_T0.143850.622
114_T117_T0.14380.622
55_Q107_K0.143690.621
281_S284_Q0.143540.621
129_D132_Q0.142960.618
28_G137_R0.142950.618
148_N151_S0.142640.617
29_L32_D0.142630.617
32_D227_R0.142470.616
93_G126_D0.142310.616
45_L48_Y0.14230.615
30_L166_W0.142170.615
130_L133_I0.141950.614
150_D195_R0.141680.613
262_K265_R0.141240.611
190_D193_S0.141130.610
271_S279_L0.141070.610
188_N224_F0.140830.609
49_L61_T0.140650.608
35_G142_E0.140160.606
199_K202_F0.139950.605
266_E269_K0.139710.604
140_V187_L0.139610.604
181_Y198_F0.139470.603
144_H169_S0.139410.603
213_N217_L0.138740.600
224_F227_R0.138660.600
283_L286_L0.138530.599
77_I86_L0.138390.599
68_S72_Q0.138140.597
138_V165_R0.137880.596
27_G32_D0.137860.596
264_A279_L0.137820.596
132_Q159_K0.137770.596
267_N271_S0.137330.594
266_E270_Q0.13730.594
282_L292_V0.137190.593
37_G142_E0.137180.593
253_Q256_L0.137090.593
204_R207_K0.13680.592
223_E226_I0.13640.590
178_E203_Y0.136330.590
173_I229_T0.136250.589
94_D99_R0.135980.588
151_S182_S0.135710.587
8_W80_W0.135650.587
278_K285_I0.13560.586
148_N175_N0.135040.584
50_K56_R0.135020.584
169_S179_D0.135020.584
279_L284_Q0.134850.583
119_R156_A0.134740.583
260_L263_E0.134730.583
175_N228_R0.134670.582
258_N267_N0.134450.582
280_S288_R0.134240.581
30_L34_M0.134120.580
105_L108_Y0.134080.580
234_E237_L0.134050.580
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
3mwyW0.91971000.147
1z3iX0.95651000.168
1z63A0.90971000.222
3dmqA0.93311000.399
1wp9A0.919799.90.574
2fwrA0.742599.90.591
4a2wA0.929899.90.601
2ykgA0.936599.90.603
2ocaA0.769299.80.611
1rifA0.548599.80.613

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