GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
AAA_35 - AAA-like domain
Pfam: PF14516 (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: 331
Sequences: 7444
Seq/Len: 22.49
HH_delta: 0.426 (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
48_L174_A0.805054.466
206_V236_V0.596523.309
202_T205_E0.54583.028
48_L132_F0.509522.826
38_A42_M0.467442.593
205_E208_E0.426762.367
203_P223_E0.410592.278
50_R53_E0.399192.214
40_R176_S0.397922.207
46_S50_R0.39182.173
52_L132_F0.390322.165
218_S221_Q0.383722.129
210_A240_C0.382872.124
224_Q227_D0.362072.008
50_R54_R0.348241.932
40_R135_E0.343921.908
136_I173_L0.339551.884
24_Y54_R0.337041.870
323_P326_R0.330621.834
201_F209_L0.32841.822
201_F205_E0.327431.816
224_Q228_W0.325291.804
207_Q211_Q0.32251.789
63_V66_D0.321421.783
269_D273_D0.320271.777
37_K195_P0.319461.772
203_P207_Q0.319431.772
35_R175_G0.318721.768
282_L286_Q0.312641.734
42_M232_H0.312061.731
203_P227_D0.311151.726
36_I48_L0.308311.710
206_V226_M0.303671.685
23_C51_L0.302261.677
207_Q222_L0.292031.620
21_Q24_Y0.290351.611
312_K319_E0.288471.600
42_M233_P0.288021.598
321_R325_Y0.282471.567
211_Q222_L0.282321.566
225_L236_V0.281921.564
21_Q25_Q0.28111.559
281_L304_K0.280841.558
61_R127_K0.280571.556
223_E227_D0.279771.552
39_P42_M0.278221.543
314_D319_E0.277461.539
49_L64_Y0.275481.528
79_E83_R0.274251.521
135_E138_R0.271131.504
24_Y51_L0.268521.490
45_T134_D0.2651.470
64_Y67_L0.261081.448
205_E209_L0.260261.444
66_D135_E0.259631.440
84_W88_E0.259511.440
47_L198_L0.254751.413
323_P327_Q0.25341.406
233_P236_V0.249541.384
23_C26_E0.248991.381
268_L324_I0.247491.373
207_Q223_E0.246521.367
60_Y130_V0.24371.352
37_K197_E0.242891.347
176_S322_N0.240591.335
28_V58_Q0.237791.319
206_V209_L0.236851.314
48_L172_I0.236181.310
67_L133_I0.233381.295
23_C34_I0.233341.294
131_L171_L0.233011.293
278_N304_K0.232081.287
234_Y322_N0.231761.286
22_E26_E0.23091.281
208_E211_Q0.230871.281
225_L239_A0.230321.278
24_Y28_V0.229641.274
36_I47_L0.229361.272
266_D269_D0.227441.262
237_Q241_Y0.225081.249
25_Q28_V0.224961.248
249_T252_Q0.224191.244
152_L156_W0.221381.228
207_Q226_M0.217461.206
39_P232_H0.217081.204
313_R318_L0.215611.196
284_A301_D0.214121.188
202_T206_V0.212661.180
22_E194_Q0.212331.178
238_K241_Y0.211851.175
77_D80_Q0.211371.173
278_N281_L0.210141.166
291_S294_P0.20961.163
36_I196_I0.208871.159
207_Q219_Q0.207191.149
138_R176_S0.207061.149
201_F233_P0.20651.145
208_E212_R0.205611.141
51_L55_L0.204941.137
217_F221_Q0.204581.135
52_L56_Q0.203131.127
224_Q258_I0.202251.122
42_M198_L0.201821.120
261_N264_Y0.199791.108
62_C66_D0.199531.107
36_I198_L0.199131.105
305_L308_L0.199111.105
204_E207_Q0.198151.099
234_Y238_K0.197061.093
51_L172_I0.196631.091
219_Q223_E0.195361.084
41_Q176_S0.195071.082
268_L325_Y0.193751.075
200_D230_G0.19291.070
226_M229_T0.192081.066
46_S237_Q0.190941.059
291_S295_V0.190481.057
115_E119_E0.190061.054
64_Y132_F0.189721.052
302_I318_L0.189261.050
38_A41_Q0.18891.048
65_I81_F0.188541.046
23_C27_I0.18761.041
310_L325_Y0.185931.031
26_E34_I0.184911.026
41_Q135_E0.184411.023
238_K271_L0.184411.023
284_A287_Q0.184021.021
45_T49_L0.182351.012
203_P226_M0.181851.009
280_E283_E0.181851.009
40_R322_N0.180891.003
134_D137_D0.180160.999
24_Y27_I0.179990.998
25_Q29_Q0.179820.997
232_H235_L0.178980.993
128_P170_R0.17810.988
301_D305_L0.177890.987
234_Y237_Q0.177510.985
36_I174_A0.17750.985
281_L284_A0.177410.984
46_S49_L0.17730.984
306_E311_V0.176840.981
311_V320_V0.175910.976
229_T239_A0.175020.971
226_M236_V0.173780.964
288_I320_V0.173030.960
35_R173_L0.172860.959
275_L278_N0.172720.958
150_F154_R0.170890.948
132_F174_A0.170440.945
306_E313_R0.169960.943
68_Q71_G0.169330.939
134_D174_A0.169140.938
135_E174_A0.168420.934
206_V231_G0.16840.934
264_Y267_H0.167570.930
288_I295_V0.166860.926
272_L285_Y0.166750.925
230_G323_P0.166720.925
281_L305_L0.165040.916
77_D84_W0.164370.912
23_C28_V0.164340.912
155_S159_Q0.163810.909
285_Y289_L0.16370.908
282_L285_Y0.163290.906
61_R129_L0.162760.903
302_I306_E0.162720.903
176_S327_Q0.162510.901
84_W87_E0.162210.900
130_V174_A0.162210.900
62_C65_I0.16140.895
64_Y69_Q0.160790.892
81_F133_I0.160450.890
64_Y68_Q0.159040.882
80_Q84_W0.158880.881
321_R324_I0.158610.880
78_L81_F0.158590.880
21_Q28_V0.158550.880
232_H236_V0.158420.879
34_I194_Q0.157850.876
204_E208_E0.157790.875
109_S112_S0.157330.873
226_M231_G0.15720.872
235_L238_K0.157060.871
68_Q72_S0.156060.866
209_L236_V0.156020.865
229_T236_V0.156010.865
49_L52_L0.15560.863
113_C116_Y0.155520.863
222_L226_M0.155510.863
32_S194_Q0.155410.862
63_V129_L0.15510.860
254_L258_I0.155090.860
54_R57_Q0.155020.860
305_L309_G0.154710.858
41_Q322_N0.154650.858
39_P45_T0.153460.851
314_D317_Q0.153160.850
205_E210_A0.15260.847
272_L275_L0.152270.845
52_L62_C0.1520.843
32_S170_R0.151770.842
279_P283_E0.151690.841
210_A236_V0.15160.841
65_I133_I0.15140.840
26_E194_Q0.150840.837
135_E176_S0.150650.836
41_Q234_Y0.150470.835
82_L85_F0.150330.834
40_R234_Y0.15020.833
268_L271_L0.150170.833
99_L102_Y0.150130.833
250_L254_L0.150130.833
254_L260_D0.149850.831
87_E112_S0.149370.829
211_Q215_L0.149360.829
51_L170_R0.14930.828
77_D88_E0.149290.828
219_Q222_L0.149070.827
320_V326_R0.148830.826
27_I170_R0.14860.824
270_R273_D0.14850.824
209_L237_Q0.148230.822
281_L285_Y0.148210.822
87_E91_R0.148120.822
272_L286_Q0.147680.819
175_G181_I0.147380.818
26_E29_Q0.146670.814
38_A232_H0.146630.813
306_E309_G0.146480.813
322_N325_Y0.145880.809
33_Y193_G0.14580.809
136_I139_L0.14560.808
90_S93_L0.145010.804
128_P168_K0.144720.803
85_F88_E0.144590.802
224_Q251_E0.144090.799
251_E255_E0.143760.797
23_C47_L0.143140.794
83_R87_E0.143070.794
34_I170_R0.143010.793
258_I261_N0.142730.792
115_E118_E0.141830.787
203_P231_G0.141560.785
304_K308_L0.14110.783
293_E296_D0.140610.780
209_L229_T0.140060.777
262_G265_N0.140060.777
248_I252_Q0.139990.777
134_D321_R0.139930.776
130_V170_R0.139780.775
229_T232_H0.139760.775
271_L275_L0.139760.775
215_L218_S0.139550.774
303_Y307_S0.139410.773
41_Q44_K0.139230.772
237_Q244_V0.139040.771
280_E301_D0.138910.771
264_Y324_I0.138550.769
290_F295_V0.13820.767
66_D69_Q0.138110.766
289_L292_G0.138090.766
235_L264_Y0.137910.765
53_E56_Q0.137370.762
249_T253_L0.137360.762
60_Y128_P0.137330.762
55_L58_Q0.137150.761
21_Q26_E0.136850.759
284_A288_I0.135830.753
299_S303_Y0.135510.752
287_Q290_F0.135490.752
214_G217_F0.135460.751
272_L282_L0.135380.751
152_L157_Y0.135180.750
279_P282_L0.135140.750
289_L320_V0.133660.741
292_G295_V0.133610.741
288_I292_G0.133590.741
301_D310_L0.132980.738
98_K102_Y0.132950.737
22_E25_Q0.132910.737
38_A198_L0.132560.735
270_R274_R0.132420.735
260_D263_I0.131990.732
40_R137_D0.131420.729
98_K101_E0.131410.729
317_Q320_V0.131350.729
35_R136_I0.131250.728
225_L240_C0.131090.727
170_R173_L0.130980.727
301_D304_K0.13090.726
201_F231_G0.130640.725
266_D270_R0.130580.724
46_S201_F0.130550.724
175_G180_Y0.13020.722
229_T233_P0.129930.721
48_L52_L0.129920.721
67_L81_F0.129870.720
310_L313_R0.12980.720
129_L169_L0.12930.717
85_F96_D0.129230.717
49_L53_E0.129180.717
52_L64_Y0.129130.716
40_R324_I0.128730.714
34_I172_I0.128690.714
206_V210_A0.128620.713
44_K234_Y0.128530.713
69_Q72_S0.128330.712
81_F85_F0.128140.711
309_G313_R0.127980.710
203_P222_L0.127620.708
132_F172_I0.127210.706
150_F156_W0.12670.703
92_Q95_L0.12650.702
283_E286_Q0.126020.699
137_D323_P0.125880.698
294_P317_Q0.125670.697
78_L84_W0.125510.696
43_G47_L0.124980.693
288_I294_P0.124840.693
281_L301_D0.124830.692
303_Y306_E0.124470.690
211_Q214_G0.124080.688
97_E112_S0.123690.686
238_K267_H0.123650.686
209_L213_Y0.12360.686
110_K114_T0.123550.685
84_W111_I0.123460.685
298_D302_I0.123190.683
285_Y320_V0.123180.683
135_E175_G0.123080.683
210_A243_L0.123050.683
252_Q256_E0.122920.682
308_L312_K0.122840.681
65_I136_I0.12250.680
38_A43_G0.122460.679
168_K171_L0.1220.677
317_Q321_R0.121830.676
210_A225_L0.12180.676
68_Q138_R0.121770.675
37_K175_G0.121480.674
67_L136_I0.121470.674
51_L225_L0.121410.673
24_Y55_L0.121120.672
37_K177_T0.121110.672
263_I266_D0.121050.671
178_E181_I0.121020.671
196_I202_T0.120910.671
135_E234_Y0.12090.671
65_I68_Q0.12080.670
72_S325_Y0.120780.670
36_I172_I0.120380.668
130_V172_I0.120270.667
93_L96_D0.120160.667
287_Q291_S0.120150.666
215_L220_E0.120130.666
62_C67_L0.120.666
114_T157_Y0.120.666
53_E57_Q0.119990.666
290_F293_E0.119930.665
237_Q240_C0.119870.665
229_T267_H0.119670.664
242_L245_E0.119350.662
135_E323_P0.118970.660
321_R326_R0.118920.660
302_I311_V0.118830.659
200_D232_H0.11850.657
112_S119_E0.118450.657
135_E324_I0.117990.655
126_D220_E0.117960.654
322_N327_Q0.117430.651
300_D304_K0.117180.650
41_Q264_Y0.116310.645
67_L71_G0.11610.644
33_Y173_L0.116090.644
268_L275_L0.115880.643
100_D111_I0.11570.642
22_E202_T0.115680.642
305_L313_R0.115670.642
252_Q255_E0.115490.641
93_L97_E0.115120.639
232_H238_K0.115110.639
209_L233_P0.114970.638
86_C90_S0.114940.638
23_C196_I0.114820.637
206_V229_T0.114790.637
306_E318_L0.114530.635
240_C244_V0.114280.634
250_L253_L0.11410.633
235_L271_L0.113890.632
201_F236_V0.113730.631
118_E159_Q0.113670.631
280_E284_A0.113660.630
35_R40_R0.113630.630
312_K321_R0.113620.630
134_D175_G0.113530.630
137_D140_F0.113270.628
310_L320_V0.113220.628
271_L285_Y0.11290.626
137_D229_T0.112880.626
135_E173_L0.112870.626
68_Q85_F0.112790.626
96_D99_L0.112710.625
96_D102_Y0.11270.625
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
3sfzA0.885299.90.426
1z6tA0.888299.90.44
2qenA0.939699.90.453
2fnaA0.927599.90.458
2a5yB0.885299.90.473
1vt4I0.876199.90.488
1w5sA0.918499.80.567
2v1uA0.912499.70.585
1fnnA0.903399.70.588
2qbyA0.906399.70.588

Page generated in 0.0384 seconds.