GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Nol1_Nop2_Fmu - NOL1NOP2sun family
Pfam: PF01189 (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: 283
Sequences: 3600
Seq/Len: 12.72
HH_delta: 0.21 (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
231_V282_L0.839413.847
199_D237_R0.776563.559
195_R233_K0.736173.373
160_V205_L0.709043.249
214_R281_K0.664843.047
90_L157_F0.64372.950
242_E283_R0.615912.822
87_E159_R0.609622.794
214_R283_R0.601672.757
195_R230_V0.598252.741
202_A241_F0.597252.737
205_L215_L0.573122.626
158_D210_K0.571362.618
146_R196_E0.533662.445
112_E139_I0.523292.398
100_T115_A0.515882.364
107_M111_G0.508952.332
162_V197_I0.502672.303
228_E266_R0.497532.280
21_S24_E0.494022.264
20_I25_L0.483752.217
202_A234_F0.480952.204
264_C278_F0.478792.194
244_V283_R0.474292.173
216_V281_K0.463542.124
83_P87_E0.458822.103
92_M201_A0.449292.059
39_I72_E0.444312.036
117_D123_L0.444092.035
243_L280_A0.441542.023
130_L138_V0.436522.000
169_L223_S0.435131.994
84_Q87_E0.429751.969
219_T227_N0.42931.967
26_L36_L0.428641.964
199_D238_H0.410581.881
169_L221_S0.402491.844
244_V281_K0.397481.821
13_I67_F0.385771.768
234_F241_F0.385761.768
114_V157_F0.383741.758
25_L67_F0.380321.743
19_K134_G0.376381.725
39_I45_A0.373861.713
224_P229_E0.36991.695
109_N137_N0.367361.683
103_L161_L0.363081.664
78_A102_H0.363071.664
191_A230_V0.357081.636
101_T133_L0.352721.616
233_K237_R0.342631.570
17_T44_D0.338771.552
104_A135_V0.334131.531
232_E236_K0.32311.481
202_A215_L0.321961.475
45_A75_Q0.31851.460
234_F238_H0.317771.456
93_C162_V0.317641.456
123_L140_V0.317091.453
94_A126_L0.315291.445
100_T113_I0.314351.440
73_S274_T0.312371.431
88_R112_E0.31141.427
20_I66_L0.30851.414
243_L264_C0.306891.406
200_N203_K0.306151.403
60_P64_N0.303921.393
195_R237_R0.303591.391
198_L215_L0.300821.378
77_V279_I0.295811.356
267_I274_T0.292111.339
198_L234_F0.283761.300
80_A279_I0.2811.288
22_R38_P0.280031.283
81_L103_L0.277361.271
42_S45_A0.276041.265
28_E66_L0.272571.249
235_L243_L0.27181.246
82_D214_R0.264741.213
3_E7_C0.262461.203
123_L142_N0.25761.180
182_R186_D0.256891.177
225_E229_E0.256321.175
85_P110_K0.25591.173
102_H106_L0.255521.171
17_T105_E0.254551.166
26_L48_V0.253271.161
89_V111_G0.251561.153
12_T72_E0.247941.136
159_R214_R0.247771.135
81_L159_R0.246751.131
116_N141_I0.246161.128
78_A103_L0.243461.116
188_E225_E0.243381.115
114_V141_I0.243131.114
148_L204_L0.242331.110
100_T130_L0.241311.106
135_V138_V0.240091.100
77_V102_H0.239691.098
26_L38_P0.238861.095
92_M145_A0.238341.092
161_L218_S0.238191.091
124_K127_K0.238171.091
32_E61_E0.237641.089
79_L106_L0.237281.087
82_D159_R0.237261.087
229_E232_E0.236411.083
172_I178_I0.236281.083
15_V25_L0.235911.081
81_L161_L0.235651.080
187_I191_A0.235471.079
77_V216_V0.234411.074
61_E67_F0.234411.074
27_E30_E0.234411.074
101_T130_L0.23421.073
90_L116_N0.233871.072
195_R199_D0.233841.072
88_R114_V0.22971.053
37_E49_I0.229081.050
214_R244_V0.227171.041
203_K238_H0.227061.040
68_Y101_T0.225491.033
42_S72_E0.225391.033
160_V201_A0.223211.023
68_Y129_N0.222571.020
7_C273_G0.221681.016
191_A195_R0.221381.014
94_A100_T0.220831.012
231_V235_L0.22041.010
103_L159_R0.219541.006
71_D174_R0.218951.003
164_A197_I0.217880.998
111_G137_N0.217730.998
73_S267_I0.216270.991
205_L241_F0.216120.990
74_S277_F0.215960.990
43_P79_L0.21520.986
92_M162_V0.214340.982
145_A197_I0.212980.976
243_L282_L0.212310.973
61_E66_L0.211640.970
88_R157_F0.211270.968
104_A137_N0.211050.967
231_V243_L0.208010.953
83_P89_V0.207030.949
19_K66_L0.204920.939
22_R26_L0.204620.938
192_E196_E0.201920.925
235_L282_L0.199860.916
35_Q51_K0.199550.914
269_P276_G0.199450.914
202_A205_L0.199170.913
100_T138_V0.198130.908
71_D173_R0.198070.908
37_E51_K0.196940.902
83_P106_L0.196170.899
224_P228_E0.19570.897
235_L238_H0.195280.895
83_P107_M0.194730.892
121_K124_K0.194230.890
241_F282_L0.19390.889
169_L172_I0.191680.878
88_R210_K0.19110.876
245_P263_G0.190820.874
101_T129_N0.189880.870
44_D79_L0.188360.863
92_M197_I0.188050.862
96_P122_R0.187760.860
89_V107_M0.187060.857
39_I42_S0.186830.856
146_R200_N0.186830.856
20_I28_E0.186720.856
92_M160_V0.186570.855
143_A147_K0.18580.851
88_R156_K0.185780.851
174_R275_D0.184950.848
12_T39_I0.184780.847
188_E191_A0.184620.846
92_M116_N0.184520.846
216_V279_I0.184040.843
32_E60_P0.18350.841
193_L196_E0.182630.837
121_K125_R0.182570.837
77_V218_S0.181920.834
116_N143_A0.18160.832
183_S186_D0.181470.832
99_K163_D0.179750.824
128_E132_R0.179610.823
85_P108_G0.178890.820
104_A113_I0.178710.819
163_D220_C0.178630.819
81_L216_V0.178390.817
191_A225_E0.177880.815
171_T175_N0.177770.815
90_L160_V0.177650.814
76_L267_I0.176260.808
167_S190_L0.175420.804
3_E6_N0.174770.801
199_D233_K0.17440.799
238_H241_F0.174090.798
125_R128_E0.172070.788
189_K193_L0.171050.784
127_K131_K0.170960.783
71_D275_D0.170850.783
14_R101_T0.170660.782
215_L234_F0.169940.779
11_V53_P0.168790.773
18_L135_V0.168780.773
45_A72_E0.16860.773
41_R72_E0.168280.771
94_A115_A0.168220.771
264_C280_A0.167640.768
5_N222_L0.166940.765
23_E27_E0.16680.764
122_R169_L0.166670.764
28_E31_E0.166230.762
117_D178_I0.1660.761
15_V22_R0.165910.760
18_L109_N0.16560.759
120_P142_N0.165440.758
68_Y105_E0.164640.754
82_D87_E0.164630.754
200_N204_L0.163790.751
30_E35_Q0.163790.751
172_I179_K0.163750.750
30_E36_L0.163510.749
123_L126_L0.163380.749
80_A83_P0.163150.748
163_D166_C0.163010.747
160_V215_L0.162850.746
260_I263_G0.161960.742
24_E66_L0.161720.741
146_R193_L0.161160.739
72_E274_T0.159940.733
116_N148_L0.159370.730
131_K136_F0.159290.730
177_D181_R0.159190.729
76_L265_L0.159120.729
26_L30_E0.158580.727
82_D106_L0.157540.722
107_M137_N0.157030.720
184_P188_E0.156250.716
202_A282_L0.155380.712
84_Q159_R0.155370.712
113_I135_V0.155010.710
183_S187_I0.154540.708
119_S122_R0.15450.708
205_L213_G0.154060.706
6_N179_K0.153690.704
20_I24_E0.153610.704
198_L241_F0.153520.703
99_K220_C0.153410.703
68_Y133_L0.153190.702
23_E26_L0.153110.702
83_P103_L0.151860.696
13_I50_G0.151460.694
73_S77_V0.151290.693
109_N135_V0.14990.687
25_L29_L0.149770.686
177_D180_W0.149620.686
85_P107_M0.149410.685
82_D281_K0.149190.684
103_L113_I0.148740.682
91_D99_K0.148580.681
110_K137_N0.147140.674
147_K150_P0.14560.667
158_D213_G0.145080.665
87_E107_M0.144960.664
27_E31_E0.144680.663
62_F65_G0.144520.662
198_L233_K0.144380.662
16_N19_K0.144290.661
117_D126_L0.143260.656
23_E38_P0.143180.656
116_N142_N0.143160.656
215_L241_F0.143080.656
146_R197_I0.143060.656
107_M113_I0.142550.653
270_H274_T0.142490.653
91_D163_D0.142310.652
22_R45_A0.14220.652
55_S58_S0.142120.651
232_E262_E0.142020.651
68_Y95_A0.14170.649
108_G111_G0.140810.645
91_D220_C0.140650.645
65_G132_R0.140320.643
222_L276_G0.140240.643
191_A233_K0.140190.642
199_D234_F0.140010.642
157_F160_V0.139970.641
211_P240_D0.139170.638
240_D283_R0.139150.638
62_F132_R0.138790.636
243_L278_F0.138640.635
117_D130_L0.138430.634
4_A7_C0.138080.633
90_L114_V0.137750.631
265_L279_I0.137640.631
120_P124_K0.137250.629
78_A81_L0.136790.627
126_L140_V0.136770.627
28_E61_E0.136350.625
2_L6_N0.135960.623
130_L137_N0.135370.620
105_E135_V0.134870.618
169_L182_R0.134410.616
12_T49_I0.134340.616
190_L193_L0.134220.615
162_V201_A0.13410.615
107_M110_K0.133870.613
14_R105_E0.133850.613
124_K128_E0.133520.612
116_N140_V0.133290.611
18_L108_G0.133130.610
109_N136_F0.132670.608
18_L105_E0.132460.607
75_Q78_A0.131750.604
8_P35_Q0.131180.601
148_L151_K0.130880.600
243_L263_G0.130670.599
12_T171_T0.130590.598
80_A281_K0.130380.597
129_N132_R0.130380.597
195_R234_F0.130290.597
15_V48_V0.130120.596
144_D147_K0.129780.595
86_G108_G0.12950.593
143_A148_L0.12860.589
191_A229_E0.128170.587
186_D189_K0.128130.587
126_L129_N0.127860.586
202_A240_D0.126990.582
70_Q226_E0.126980.582
120_P127_K0.126460.579
217_Y231_V0.126430.579
28_E32_E0.126340.579
9_P173_R0.126230.578
167_S187_I0.1260.577
92_M177_D0.125850.577
127_K140_V0.125840.577
157_F204_L0.125560.575
80_A265_L0.125290.574
189_K192_E0.125210.574
185_E189_K0.125150.573
167_S221_S0.125110.573
87_E210_K0.125090.573
246_I281_K0.125090.573
130_L140_V0.124990.573
20_I31_E0.124960.573
96_P163_D0.124840.572
230_V233_K0.12440.570
73_S218_S0.124370.570
125_R168_G0.12410.569
82_D85_P0.124090.569
89_V159_R0.123720.567
60_P63_K0.123670.567
181_R186_D0.123420.566
156_K210_K0.122990.564
97_G163_D0.122730.562
90_L204_L0.122230.560
24_E31_E0.122110.560
9_P174_R0.121970.559
129_N133_L0.121960.559
70_Q170_G0.121370.556
234_F240_D0.121320.556
98_G165_P0.121080.555
64_N67_F0.120840.554
126_L130_L0.12060.553
13_I69_V0.120440.552
94_A99_K0.120440.552
78_A106_L0.120030.550
76_L274_T0.119890.549
12_T45_A0.11980.549
96_P126_L0.119780.549
115_A161_L0.119620.548
76_L80_A0.119370.547
199_D203_K0.119290.547
228_E264_C0.118980.545
17_T20_I0.11890.545
22_R25_L0.118830.545
246_I263_G0.118590.543
101_T126_L0.118540.543
93_C99_K0.118420.543
267_I279_I0.118260.542
188_E192_E0.117910.540
148_L152_K0.11720.537
96_P129_N0.117190.537
25_L28_E0.1170.536
94_A163_D0.116820.535
133_L186_D0.116580.534
233_K236_K0.11650.534
175_N275_D0.116410.533
42_S79_L0.116370.533
202_A238_H0.11620.532
128_E131_K0.116020.532
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
3m4xA0.94351000.21
3m6wA0.96111000.213
2frxA0.97531000.214
2b9eA0.98231000.22
4fzvA0.97531000.229
2yxlA0.95761000.256
1ixkA0.96471000.266
1sqgA0.93291000.276
3ajdA0.95051000.328
3vseA0.858799.90.724

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