GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
SLA_LP_auto_ag - Soluble liver antigenliver pancreas antigen (SLALP autoantigen)
Pfam: PF05889 (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: CL0061
Length: 389
Sequences: 20206
Seq/Len: 51.94
HH_delta: 0.292 (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
178_A182_K2.320244.571
337_R386_K2.307934.547
373_T376_E1.985333.911
145_E183_E1.842213.629
141_L176_E1.770633.488
286_Y378_D1.731983.412
286_Y374_R1.559853.073
275_A278_K1.507552.970
379_Y383_R1.499492.954
176_E179_K1.414972.788
143_A146_A1.403642.765
333_M336_K1.402322.763
179_K183_E1.391612.742
279_E283_S1.385662.730
285_P289_E1.377912.715
290_R293_K1.320762.602
145_E149_E1.279162.520
333_M387_I1.229212.422
333_M337_R1.206252.377
290_R378_D1.20222.369
178_A188_H1.116482.200
290_R381_V1.114922.197
143_A147_K1.108792.184
288_K292_K1.087162.142
103_Y154_D1.08272.133
172_D176_E1.061832.092
158_C181_C1.049542.068
144_I177_I1.048972.067
339_V383_R1.048962.067
175_E179_K1.034062.037
266_L269_G0.997221.965
59_N63_L0.995891.962
282_A374_R0.989891.950
145_E176_E0.984241.939
145_E184_Y0.979481.930
289_E293_K0.978061.927
141_L180_I0.957931.887
64_D269_G0.956171.884
334_L342_I0.937171.846
146_A150_E0.928711.830
181_C186_I0.920841.814
278_K282_A0.913051.799
145_E180_I0.907581.788
286_Y290_R0.863211.701
181_C188_H0.853121.681
337_R383_R0.846391.668
160_L177_I0.84291.661
379_Y382_K0.841611.658
283_S286_Y0.840461.656
76_S239_P0.834971.645
329_F333_M0.834061.643
180_I184_Y0.831881.639
159_V189_L0.830321.636
374_R378_D0.820731.617
279_E282_A0.817641.611
239_P243_L0.813991.604
294_W385_D0.812141.600
142_E146_A0.795521.567
182_K213_R0.793271.563
382_K386_K0.793261.563
148_I186_I0.785741.548
142_E145_E0.77321.523
270_C274_G0.771651.520
77_C80_V0.764491.506
103_Y155_N0.757161.492
149_E184_Y0.756251.490
378_D382_K0.750031.478
332_S336_K0.749911.477
157_L189_L0.73581.450
102_K154_D0.733651.445
178_A181_C0.731611.441
140_D143_A0.72911.436
266_L270_C0.715911.410
337_R387_I0.708341.396
294_W381_V0.702321.384
290_R382_K0.700861.381
375_E378_D0.69381.367
145_E179_K0.693031.365
376_E379_Y0.692741.365
177_I188_H0.691771.363
219_Q233_I0.688361.356
105_I155_N0.687091.354
64_D272_G0.679851.339
339_V380_F0.673251.326
326_D329_F0.6731.326
142_E176_E0.671451.323
283_S374_R0.667141.314
160_L174_I0.6631.306
60_S64_D0.648411.277
129_E143_A0.648381.277
56_K60_S0.645621.272
283_S377_V0.637841.257
334_L387_I0.636261.254
290_R294_W0.63091.243
103_Y149_E0.625551.232
375_E379_Y0.624961.231
334_L383_R0.623011.227
148_I180_I0.618631.219
236_S242_I0.613111.208
328_T332_S0.610751.203
286_Y289_E0.605531.193
265_L269_G0.604841.192
103_Y126_V0.600581.183
303_L317_D0.594141.171
289_E292_K0.593951.170
147_K150_E0.593171.169
95_L187_P0.5921.166
149_E183_E0.589951.162
190_V214_V0.586441.155
158_C186_I0.578761.140
372_M377_V0.577391.138
179_K182_K0.573061.129
60_S269_G0.569651.122
108_R129_E0.568071.119
104_V157_L0.565571.114
88_L220_S0.562061.107
58_T62_V0.55911.102
59_N62_V0.55811.100
91_C189_L0.552551.089
329_F332_S0.549041.082
330_L387_I0.548741.081
366_A380_F0.546781.077
281_K285_P0.543291.070
290_R385_D0.541871.068
292_K295_A0.541331.067
158_C177_I0.536331.057
330_L384_L0.533161.050
146_A149_E0.530041.044
148_I155_N0.529041.042
330_L364_L0.522751.030
179_K213_R0.522091.029
237_F240_S0.52041.025
383_R386_K0.512481.010
288_K312_M0.510451.006
77_C235_A0.507531.000
282_A286_Y0.501280.988
102_K156_I0.500470.986
105_I147_K0.499960.985
334_L339_V0.496860.979
332_S335_F0.496260.978
190_V210_R0.496190.978
366_A384_L0.488820.963
99_P102_K0.487880.961
276_L280_R0.487740.961
381_V385_D0.48640.958
269_G273_Y0.485530.957
290_R374_R0.48540.956
175_E213_R0.483360.952
89_T93_L0.480190.946
95_L189_L0.476560.939
148_I184_Y0.474470.935
295_A302_L0.474420.935
284_F288_K0.472970.932
334_L384_L0.472770.931
192_N195_G0.471490.929
88_L159_V0.471170.928
98_R241_G0.470790.928
189_L218_V0.470260.926
182_K215_D0.467520.921
271_T276_L0.467420.921
280_R284_F0.466760.920
372_M380_F0.463770.914
270_C273_Y0.463680.914
339_V379_Y0.462480.911
126_V129_E0.461630.909
380_F383_R0.461160.909
103_Y124_E0.460920.908
299_G317_D0.459980.906
60_S63_L0.458490.903
277_L280_R0.458390.903
57_L61_L0.458050.902
263_I266_L0.458040.902
162_T174_I0.455190.897
215_D237_F0.454980.896
277_L281_K0.453560.894
62_V66_L0.453470.893
176_E180_I0.45190.890
271_T277_L0.447180.881
111_Q114_C0.445750.878
80_V232_A0.445450.878
92_L104_V0.445030.877
180_I186_I0.440.867
278_K281_K0.433860.855
76_S243_L0.433310.854
257_P260_D0.433270.854
221_T233_I0.4320.851
262_F266_L0.430760.849
238_D241_G0.429230.846
56_K59_N0.425750.839
266_L273_Y0.423350.834
330_L388_I0.423260.834
284_F287_L0.422620.833
242_I246_S0.422040.831
221_T235_A0.420420.828
279_E373_T0.420230.828
91_C220_S0.418450.824
221_T225_F0.41840.824
383_R387_I0.416460.820
180_I183_E0.415070.818
101_A185_D0.415040.818
282_A285_P0.415010.818
165_C194_Y0.414870.817
94_A245_V0.411890.811
313_A316_L0.409790.807
287_L290_R0.408050.804
141_L145_E0.407110.802
377_V381_V0.404590.797
331_G335_F0.403680.795
207_Q210_R0.403210.794
144_I180_I0.402910.794
382_K385_D0.40140.791
241_G244_A0.398720.786
334_L380_F0.396750.782
160_L188_H0.394860.778
79_V261_L0.394580.777
104_V118_I0.394030.776
149_E155_N0.392570.773
279_E374_R0.389170.767
162_T190_V0.388630.766
301_R381_V0.386820.762
212_G308_N0.386530.762
288_K307_R0.386390.761
330_L334_L0.385370.759
283_S287_L0.384630.758
339_V387_I0.381440.751
144_I158_C0.381280.751
314_F366_A0.378060.745
95_L216_A0.375250.739
62_V65_A0.374980.739
285_P288_K0.37440.738
105_I144_I0.373470.736
229_V260_D0.372840.735
164_S167_A0.372730.734
280_R283_S0.371530.732
380_F384_L0.370.729
202_M209_W0.367070.723
65_A233_I0.366260.722
64_D265_L0.366190.721
174_I212_G0.365950.721
61_L64_D0.363910.717
240_S243_L0.361990.713
237_F242_I0.3610.711
98_R123_L0.359970.709
335_F340_S0.359190.708
217_F220_S0.358910.707
238_D243_L0.358760.707
163_T308_N0.357610.705
234_M245_V0.35710.704
86_M115_F0.357030.703
76_S242_I0.355270.700
331_G342_I0.354470.698
170_L208_A0.353860.697
227_V267_S0.353380.696
369_A372_M0.352960.695
181_C184_Y0.35090.691
230_G233_I0.348490.687
313_A363_Y0.347380.684
95_L157_L0.347240.684
92_L159_V0.343890.678
223_K232_A0.342250.674
315_T363_Y0.341570.673
128_V147_K0.341390.673
174_I190_V0.340270.670
128_V139_T0.339030.668
107_P177_I0.338550.667
91_C95_L0.338270.666
211_V308_N0.33630.663
157_L187_P0.334670.659
89_T120_R0.332190.654
162_T192_N0.331240.653
208_A219_Q0.330780.652
195_G311_S0.330550.651
121_A159_V0.329150.648
378_D381_V0.327980.646
90_L234_M0.327590.645
98_R101_A0.327560.645
162_T195_G0.327450.645
144_I148_I0.326550.643
293_K385_D0.326190.643
327_G331_G0.325960.642
107_P160_L0.325370.641
106_W159_V0.325330.641
106_W110_D0.325280.641
187_P241_G0.325260.641
109_I167_A0.324610.640
57_L60_S0.323820.638
215_D238_D0.323570.637
294_W382_K0.323480.637
107_P110_D0.32280.636
333_M386_K0.322120.635
252_R255_A0.32050.631
218_V234_M0.320340.631
72_R239_P0.320240.631
172_D175_E0.320070.631
126_V130_N0.320010.630
77_C233_I0.318640.628
125_P129_E0.317290.625
237_F241_G0.314740.620
314_F384_L0.314290.619
98_R244_A0.312980.617
384_L388_I0.312720.616
220_S232_A0.310880.612
92_L121_A0.310030.611
61_L66_L0.307610.606
92_L117_A0.307460.606
301_R304_E0.305820.603
374_R377_V0.305820.603
295_A304_E0.305770.602
56_K269_G0.30540.602
58_T61_L0.303440.598
226_M229_V0.302820.597
153_A184_Y0.302660.596
276_L279_E0.302510.596
218_V236_S0.302280.596
287_L381_V0.30210.595
216_A241_G0.30210.595
303_L315_T0.301150.593
210_R219_Q0.30110.593
92_L118_I0.300020.591
306_P309_H0.299840.591
76_S80_V0.299680.590
90_L250_P0.299570.590
155_N186_I0.299320.590
66_L71_L0.299180.589
194_Y365_T0.299130.589
290_R377_V0.299080.589
106_W127_V0.297960.587
193_A220_S0.297730.587
288_K306_P0.297680.586
311_S367_A0.297220.586
87_S220_S0.29640.584
83_A86_M0.294860.581
61_L65_A0.294530.580
166_F194_Y0.294150.580
175_E210_R0.293040.577
343_R351_K0.29280.577
312_M315_T0.29250.576
350_K353_T0.292160.576
244_A247_K0.291670.575
223_K226_M0.291650.575
295_A385_D0.291160.574
163_T311_S0.291090.573
130_N133_E0.290110.572
145_E148_I0.289620.571
130_N134_G0.28940.570
99_P123_L0.288580.569
330_L333_M0.287720.567
98_R104_V0.28760.567
76_S238_D0.287240.566
343_R350_K0.285230.562
262_F265_L0.284420.560
133_E138_I0.28430.560
229_V232_A0.283810.559
149_E153_A0.283030.558
250_P253_A0.282930.557
274_G278_K0.282420.556
309_H313_A0.282090.556
94_A234_M0.278910.549
171_P307_R0.278830.549
141_L144_I0.278740.549
222_D232_A0.278640.549
134_G138_I0.277920.548
293_K378_D0.277770.547
224_N232_A0.276920.546
203_H210_R0.276780.545
272_G275_A0.274810.541
338_G383_R0.273660.539
86_M89_T0.273220.538
294_W388_I0.272870.538
63_L66_L0.272510.537
160_L190_V0.272490.537
57_L62_V0.272090.536
291_L294_W0.272050.536
86_M90_L0.271820.536
61_L269_G0.271320.535
133_E140_D0.269990.532
313_A317_D0.269610.531
114_C251_G0.269250.530
331_G364_L0.268560.529
331_G350_K0.267780.528
304_E315_T0.267760.528
307_R312_M0.267690.527
108_R127_V0.266890.526
287_L366_A0.266260.525
225_F233_I0.266070.524
163_T171_P0.265040.522
291_L381_V0.26490.522
259_L262_F0.263160.518
220_S223_K0.262770.518
207_Q277_L0.262610.517
268_L272_G0.26240.517
217_F221_T0.262330.517
94_A248_E0.260950.514
379_Y386_K0.260380.513
372_M376_E0.260150.513
208_A221_T0.259770.512
280_R370_I0.259520.511
295_A299_G0.259340.511
167_A170_L0.259080.510
72_R76_S0.259040.510
107_P172_D0.25890.510
160_L164_S0.258850.510
263_I267_S0.258340.509
226_M232_A0.25790.508
83_A87_S0.25760.508
93_L120_R0.257140.507
193_A223_K0.2570.506
216_A220_S0.256540.505
224_N227_V0.256080.505
373_T380_F0.255870.504
185_D214_V0.254920.502
377_V380_F0.254910.502
116_K119_E0.254410.501
251_G254_S0.254320.501
236_S241_G0.25430.501
110_D115_F0.253040.499
178_A213_R0.253030.499
117_A121_A0.252830.498
150_E153_A0.252630.498
310_I372_M0.251390.495
98_R240_S0.25080.494
128_V133_E0.250750.494
279_E377_V0.249350.491
258_S261_L0.24830.489
123_L126_V0.247650.488
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
3hl2A0.99741000.292
3aowA0.90751000.385
2z67A0.96141000.385
3l8aA0.89721000.391
3bc8A0.99491000.393
1vp4A0.90751000.394
3dzzA0.89461000.395
3nraA0.89971000.398
4atqA0.911000.399
3tfuA0.88431000.399

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