GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
PTA_PTB - Phosphate acetylbutaryl transferase
Pfam: PF01515 (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: CL0270
Length: 319
Sequences: 4615
Seq/Len: 14.47
HH_delta: 0.046 (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_R52_R1.147724.757
112_V117_A0.931463.860
173_T176_Q0.844163.499
45_V111_M0.802593.326
182_E227_K0.790533.276
219_E222_E0.756513.135
222_E226_E0.680972.822
18_V117_A0.63492.631
17_I119_A0.605392.509
108_A120_L0.604692.506
43_I117_A0.59032.446
48_R69_D0.57722.392
110_M114_L0.566222.347
178_A223_I0.551562.286
185_A189_R0.549992.279
111_M116_D0.541762.245
41_K66_E0.532562.207
47_D69_D0.502752.084
79_Y116_D0.489062.027
211_G215_D0.486282.015
222_E225_R0.482021.998
164_A265_I0.480321.991
271_A274_I0.466811.935
25_E29_E0.437181.812
184_A263_V0.423111.754
71_E102_R0.417261.729
224_A233_V0.405481.681
197_K260_D0.404381.676
174_A223_I0.403881.674
143_P299_V0.40361.673
195_E232_I0.403251.671
25_E58_L0.396871.645
151_V162_F0.39351.631
234_D237_M0.384321.593
178_A224_A0.382881.587
55_A62_L0.37751.565
52_R56_K0.377291.564
51_I67_I0.376371.560
107_F110_M0.37441.552
185_A198_V0.373321.547
218_R222_E0.370171.534
35_V65_F0.363521.507
47_D50_E0.35911.488
54_I57_E0.358451.486
25_E54_I0.357491.482
18_V112_V0.356491.477
106_Y110_M0.35381.466
85_E88_Q0.352871.462
188_A263_V0.351611.457
185_A231_L0.3511.455
79_Y111_M0.350131.451
181_A265_I0.345631.432
266_F271_A0.344411.427
178_A182_E0.343021.422
53_E57_E0.339711.408
111_M117_A0.336581.395
268_N271_A0.333971.384
181_A224_A0.333581.383
26_R29_E0.331491.374
174_A219_E0.33081.371
47_D71_E0.330761.371
50_E53_E0.330241.369
215_D218_R0.329641.366
266_F272_G0.325221.348
43_I66_E0.322871.338
75_K78_E0.322411.336
201_L274_I0.318491.320
33_Q37_E0.316951.314
178_A220_A0.316241.311
45_V107_F0.315621.308
196_P262_N0.314981.305
112_V120_L0.312511.295
33_Q36_E0.311271.290
175_E223_I0.309931.285
122_K131_M0.308911.280
32_K36_E0.305961.268
23_E50_E0.303371.257
187_T293_Q0.303291.257
46_G51_I0.303291.257
199_A261_A0.302991.256
49_E52_R0.300621.246
202_S213_S0.298971.239
53_E56_K0.298261.236
200_L233_V0.298091.235
34_A40_A0.296181.228
152_S166_T0.294421.220
162_F188_A0.289641.200
54_I58_L0.289431.200
171_D212_P0.288981.198
147_V179_E0.285361.183
107_F111_M0.279321.158
84_Y88_Q0.277861.152
80_A84_Y0.277791.151
172_P180_I0.276871.147
225_R233_V0.273481.133
48_R67_I0.273471.133
223_I227_K0.271881.127
197_K232_I0.269591.117
266_F275_A0.267391.108
275_A278_L0.267011.107
214_T217_V0.263561.092
135_V299_V0.262711.089
18_V108_A0.262341.087
223_I226_E0.260471.080
210_K225_R0.260221.078
66_E116_D0.258191.070
45_V108_A0.255341.058
221_V225_R0.254941.057
147_V176_Q0.25491.056
174_A220_A0.252591.047
175_E219_E0.250951.040
215_D219_E0.250331.037
150_S301_I0.249361.033
78_E114_L0.249171.033
163_F266_F0.248941.032
28_L32_K0.248581.030
211_G214_T0.246241.021
62_L65_F0.246021.020
186_E189_R0.244871.015
119_A300_H0.244371.013
55_A60_L0.243611.010
177_L220_A0.242391.005
181_A198_V0.239870.994
43_I68_I0.238740.989
151_V187_T0.237850.986
22_A44_L0.237480.984
203_Y211_G0.237030.982
163_F166_T0.236450.980
32_K60_L0.235560.976
171_D216_K0.234950.974
271_A275_A0.233560.968
184_A265_I0.23350.968
189_R194_E0.231260.958
216_K220_A0.230990.957
146_K179_E0.230870.957
224_A231_L0.230770.956
200_L221_V0.230750.956
146_K175_E0.230620.956
153_I162_F0.22930.950
220_A224_A0.228920.949
49_E53_E0.228210.946
27_V44_L0.225650.935
32_K65_F0.224030.928
181_A200_L0.22390.928
181_A220_A0.223190.925
32_K35_V0.222050.920
31_A44_L0.221370.917
178_A227_K0.220260.913
115_G297_K0.219280.909
176_Q180_I0.218080.904
239_F278_L0.217620.902
105_N131_M0.217350.901
105_N125_I0.216570.898
217_V267_P0.2160.895
18_V45_V0.215920.895
237_M261_A0.215690.894
103_D106_Y0.214440.889
163_F275_A0.213820.886
75_K116_D0.212590.881
43_I111_M0.211290.876
147_V169_N0.210680.873
218_R221_V0.210080.871
197_K261_A0.209790.869
168_V292_L0.209560.869
52_R67_I0.209210.867
19_F42_P0.2090.866
171_D213_S0.208740.865
112_V297_K0.208690.865
200_L217_V0.208130.863
164_A167_A0.207710.861
68_I116_D0.207390.860
132_L168_V0.205590.852
110_M142_K0.205160.850
233_V236_E0.205010.850
145_V183_N0.204730.849
24_D125_I0.204650.848
160_L164_A0.203130.842
213_S268_N0.202580.840
197_K234_D0.201490.835
164_A184_A0.201140.834
75_K79_Y0.201120.834
111_M114_L0.199940.829
274_I278_L0.199520.827
113_R297_K0.199020.825
78_E116_D0.197590.819
221_V233_V0.196650.815
31_A42_P0.19450.806
24_D27_V0.194060.804
142_K186_E0.193910.804
17_I121_V0.193690.803
186_E190_R0.192320.797
174_A178_A0.192220.797
79_Y114_L0.191950.796
163_F279_L0.19190.795
36_E61_D0.190840.791
164_A177_L0.189770.787
154_M163_F0.189010.783
20_A120_L0.188890.783
179_E227_K0.188720.782
84_Y89_R0.188590.782
200_L224_A0.188430.781
199_A233_V0.187990.779
20_A108_A0.187420.777
154_M287_A0.18730.776
68_I111_M0.186910.775
109_A120_L0.186620.773
28_L58_L0.185750.770
189_R195_E0.185540.769
172_P267_P0.184540.765
27_V30_A0.184380.764
28_L60_L0.179860.745
44_L51_I0.179820.745
156_I161_L0.179770.745
27_V123_G0.179730.745
28_L54_I0.178850.741
177_L200_L0.178150.738
182_E224_A0.17770.736
18_V111_M0.177060.734
220_A231_L0.176480.731
150_S167_A0.176440.731
151_V293_Q0.176340.731
214_T218_R0.174040.721
207_G236_E0.173880.721
106_Y138_V0.173320.718
127_T130_D0.172890.717
56_K59_G0.172670.716
122_K126_H0.172640.716
139_I299_V0.172470.715
218_R236_E0.172440.715
210_K215_D0.171560.711
106_Y142_K0.171080.709
189_R196_P0.17030.706
153_I160_L0.168660.699
165_D172_P0.168360.698
109_A134_A0.168290.697
198_V263_V0.168230.697
151_V164_A0.166730.691
26_R30_A0.166150.689
70_P107_F0.166070.688
170_I203_Y0.165970.688
183_N186_E0.165560.686
157_P279_L0.165550.686
27_V31_A0.165470.686
184_A198_V0.165230.685
29_E33_Q0.165210.685
134_A140_G0.16390.679
177_L217_V0.163890.679
86_L113_R0.163830.679
168_V171_D0.163450.677
292_L301_I0.163340.677
153_I161_L0.163330.677
159_K262_N0.16290.675
131_M301_I0.162860.675
131_M135_V0.162760.675
50_E54_I0.161520.669
109_A135_V0.161470.669
161_L264_L0.161360.669
41_K118_D0.160750.666
73_S77_E0.160420.665
109_A139_I0.159920.663
158_N260_D0.159780.662
131_M299_V0.159370.661
105_N122_K0.159310.660
123_G126_H0.159010.659
212_P215_D0.158560.657
160_L163_F0.157970.655
174_A216_K0.157390.652
109_A112_V0.157070.651
28_L62_L0.157010.651
178_A181_A0.156690.649
45_V70_P0.156570.649
55_A61_D0.156340.648
130_D133_R0.1560.647
163_F167_A0.155870.646
76_L80_A0.155680.645
201_L239_F0.155620.645
151_V188_A0.155610.645
28_L51_I0.155370.644
121_V300_H0.15520.643
198_V265_I0.154850.642
162_F166_T0.154310.640
160_L167_A0.153680.637
134_A138_V0.153640.637
156_I259_G0.153060.634
25_E57_E0.152970.634
29_E58_L0.152330.631
133_R137_Q0.152170.631
224_A227_K0.152090.630
203_Y238_Q0.151960.630
234_D261_A0.151710.629
280_Q283_G0.151690.629
167_A303_S0.151540.628
166_T276_Y0.151470.628
153_I188_A0.151070.626
152_S287_A0.151020.626
69_D72_D0.150980.626
29_E60_L0.150690.625
203_Y209_P0.150630.624
239_F264_L0.150540.624
172_P176_Q0.150530.624
177_L180_I0.148640.616
159_K260_D0.148580.616
188_A262_N0.148250.614
175_E179_E0.148190.614
149_S180_I0.147550.612
56_K67_I0.147470.611
35_V41_K0.146910.609
103_D130_D0.146490.607
264_L278_L0.145720.604
28_L55_A0.145710.604
189_R230_D0.145560.603
162_F273_N0.145220.602
87_R90_K0.145180.602
177_L267_P0.144860.600
209_P214_T0.144740.600
21_E123_G0.144170.598
171_D214_T0.143980.597
182_E231_L0.143830.596
164_A263_V0.143810.596
209_P273_N0.143580.595
174_A221_V0.143550.595
273_N304_R0.143190.593
199_A234_D0.142650.591
109_A113_R0.142580.591
166_T170_I0.142040.589
23_E47_D0.141970.588
52_R62_L0.141390.586
173_T216_K0.141330.586
160_L168_V0.141330.586
156_I159_K0.141220.585
142_K145_V0.141060.585
21_E44_L0.140990.584
104_P108_A0.140850.584
139_I297_K0.140720.583
44_L65_F0.140170.581
210_K221_V0.139970.580
109_A299_V0.139330.577
45_V117_A0.139090.576
233_V261_A0.13870.575
104_P304_R0.138510.574
217_V271_A0.13840.574
125_I130_D0.138290.573
163_F169_N0.138180.573
52_R63_D0.137720.571
301_I305_S0.137420.570
121_V302_L0.136870.567
24_D124_L0.136830.567
127_T269_L0.136620.566
179_E182_E0.136480.566
55_A67_I0.136410.565
287_A301_I0.13560.562
261_A264_L0.135570.562
132_L292_L0.135450.561
165_D169_N0.135360.561
240_D277_K0.135220.560
279_L283_G0.135170.560
201_L264_L0.134950.559
124_L127_T0.134940.559
266_F287_A0.134470.557
217_V220_A0.134390.557
161_L282_L0.134010.555
209_P212_P0.133760.554
131_M134_A0.133420.553
195_E230_D0.13340.553
197_K262_N0.133390.553
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
4e4rA0.99371000.046
1td9A0.99371000.07
1r5jA0.99371000.073
2af4C0.99061000.075
1vmiA0.99061000.076
3uf6A0.87461000.236
1ycoA0.83071000.264
4atyA0.90911000.266
3lxyA0.90911000.275
4jqpA0.9311000.285

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