GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Aldose_epim - Aldose 1-epimerase
Pfam: PF01263 (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: CL0103
Length: 300
Sequences: 3322
Seq/Len: 11.07
HH_delta: 0.137 (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
64_G77_W0.721273.636
84_P119_Y0.617813.115
13_A25_L0.603433.042
65_R72_P0.570262.875
231_L266_I0.541772.731
206_R211_D0.538952.717
122_D146_D0.520382.624
24_S33_E0.515482.599
149_P288_A0.503562.539
12_S26_Q0.473762.389
180_L218_C0.472112.380
177_D222_D0.467322.356
6_E12_S0.463962.339
109_L116_E0.455712.298
140_T296_S0.434842.192
13_A137_L0.430892.172
142_E292_S0.428122.158
106_S128_T0.427632.156
13_A22_L0.427222.154
110_V124_R0.423972.138
16_P23_T0.423782.137
97_E108_T0.419192.113
76_P89_A0.418282.109
140_T294_S0.417122.103
144_T292_S0.404112.037
4_T14_V0.403262.033
40_P43_A0.395361.993
20_A107_F0.388811.960
251_V266_I0.383881.935
3_I105_V0.382491.928
126_R142_E0.377831.905
32_R238_I0.371441.873
288_A291_E0.371091.871
138_T296_S0.37011.866
233_S238_I0.36821.856
110_V122_D0.366611.848
275_D279_N0.361731.824
15_I107_F0.359751.814
123_F152_F0.358251.806
142_E294_S0.357981.805
241_E300_T0.352121.775
196_K203_R0.351521.772
130_T140_T0.351271.771
138_T298_R0.345121.740
17_E93_P0.343451.732
111_S116_E0.341061.720
76_P117_E0.340031.714
104_S130_T0.332061.674
3_I96_V0.33021.665
92_K109_L0.328551.656
57_W277_A0.327291.650
128_T142_E0.326291.645
59_N250_V0.325671.642
124_R144_T0.324381.635
67_T72_P0.315211.589
20_A53_I0.310661.566
5_L131_L0.308811.557
100_S103_D0.308451.555
108_T126_R0.307691.551
149_P289_P0.305071.538
163_P233_S0.304231.534
207_P210_D0.302881.527
69_D149_P0.302861.527
68_F286_V0.302541.525
11_L25_L0.302481.525
53_I127_I0.301051.518
65_R74_C0.297921.502
179_Y193_A0.292181.473
230_R239_S0.290371.464
114_D148_K0.287521.450
246_F295_F0.28751.450
16_P21_E0.282871.426
132_D138_T0.281561.420
151_P286_V0.278061.402
261_I264_E0.277411.399
108_T124_R0.276561.394
14_V24_S0.276081.392
218_C250_V0.276061.392
172_L202_F0.2751.386
220_V273_V0.272671.375
54_L155_G0.271961.371
74_C77_W0.271951.371
35_L158_P0.269611.359
202_F206_R0.269531.359
86_H157_H0.268441.353
64_G74_C0.26711.347
8_G133_E0.265061.336
254_P257_D0.263851.330
145_N289_P0.260391.313
171_Q232_R0.259391.308
4_T12_S0.256671.294
208_I266_I0.256271.292
178_E194_P0.254471.283
206_R210_D0.248331.252
100_S104_S0.247951.250
172_L231_L0.247661.249
69_D288_A0.24731.247
230_R241_E0.246641.244
171_Q234_P0.246421.242
97_E106_S0.244341.232
182_L186_L0.244011.230
173_Q230_R0.242191.221
69_D148_K0.241351.217
82_P185_R0.23971.209
171_Q205_G0.239141.206
57_W285_I0.237291.196
6_E28_K0.236051.190
106_S126_R0.234751.184
130_T138_T0.23221.171
152_F293_Y0.230421.162
33_E37_Q0.230061.160
287_L291_E0.229651.158
127_I139_I0.229241.156
270_P297_T0.228161.150
27_V34_V0.226281.141
152_F287_L0.225471.137
53_I156_F0.224341.131
181_E193_A0.224041.130
18_Y93_P0.223931.129
272_F276_E0.223281.126
11_L135_G0.222281.121
36_W265_P0.222041.119
246_F272_F0.22171.118
143_V152_F0.220131.110
97_E126_R0.219851.108
173_Q205_G0.21671.093
111_S122_D0.216421.091
195_V198_T0.216111.090
276_E285_I0.213851.078
275_D278_N0.213181.075
7_N135_G0.212071.069
22_L35_L0.208921.053
94_W125_L0.207491.046
255_G263_I0.205691.037
15_I105_V0.205461.036
123_F150_M0.203921.028
79_G83_N0.20371.027
272_F285_I0.203171.024
88_F91_N0.202461.021
245_S295_F0.202411.021
64_G76_P0.201891.018
233_S236_S0.199851.008
174_V251_V0.199591.006
62_R187_L0.198731.002
22_L137_L0.198551.001
249_L268_I0.198150.999
253_T266_I0.196810.992
221_L228_V0.196060.988
27_V238_I0.195750.987
63_N83_N0.194940.983
11_L27_V0.194390.980
65_R77_W0.193630.976
195_V203_R0.192990.973
25_L35_L0.19280.972
248_W283_G0.191590.966
96_V105_V0.190850.962
26_Q33_E0.190780.962
71_K148_K0.190630.961
243_S300_T0.189610.956
67_T70_G0.189430.955
265_P268_I0.188450.950
139_I156_F0.188220.949
129_Y139_I0.187540.946
141_Y295_F0.187240.944
172_L268_I0.187140.944
95_E108_T0.187070.943
160_F299_Y0.185310.934
63_N77_W0.184940.932
214_G255_G0.184440.930
26_Q31_G0.182410.920
57_W61_I0.181450.915
254_P265_P0.181160.913
200_F217_H0.179560.905
146_D150_M0.178890.902
125_L143_V0.178730.901
11_L131_L0.178710.901
125_L154_L0.175520.885
163_P234_P0.175450.885
170_H233_S0.175070.883
174_V249_L0.173990.877
98_E104_S0.171690.866
232_R239_S0.168180.848
22_L158_P0.167640.845
211_D215_L0.16740.844
7_N10_G0.16710.842
56_P123_F0.166030.837
66_F73_Y0.164810.831
79_G85_I0.16460.830
174_V229_I0.163810.826
62_R183_D0.163770.826
218_C248_W0.163260.823
151_P277_A0.163170.823
95_E110_V0.1630.822
141_Y297_T0.16140.814
128_T140_T0.161320.813
7_N11_L0.161260.813
25_L160_F0.161170.813
162_L170_H0.160570.810
124_R146_D0.159640.805
69_D286_V0.159560.804
60_R85_I0.158830.801
113_P122_D0.156820.791
17_E95_E0.156460.789
59_N218_C0.156250.788
103_D130_T0.156090.787
63_N82_P0.155840.786
177_D203_R0.155470.784
243_S298_R0.155440.784
168_D263_I0.155080.782
227_P243_S0.154450.779
10_G28_K0.15390.776
60_R86_H0.15350.774
143_V293_Y0.153360.773
244_T297_T0.153310.773
145_N287_L0.152730.770
3_I17_E0.152530.769
83_N185_R0.152370.768
287_L292_S0.152110.767
7_N131_L0.151660.765
7_N134_N0.151570.764
84_P87_G0.151520.764
287_L290_G0.151490.764
127_I141_Y0.151090.762
149_P286_V0.150190.757
153_N273_V0.14960.754
99_Q106_S0.148980.751
57_W84_P0.148410.748
32_R233_S0.14840.748
29_G238_I0.148280.748
175_P228_V0.147830.745
90_R117_E0.147280.743
77_W82_P0.147050.741
104_S128_T0.146980.741
62_R275_D0.146320.738
132_D135_G0.14580.735
110_V113_P0.144470.728
231_L251_V0.144390.728
135_G298_R0.143670.724
169_D235_G0.14280.720
154_L293_Y0.142640.719
88_F121_F0.142350.718
107_F129_Y0.141230.712
60_R157_H0.139810.705
15_I129_Y0.139730.704
141_Y155_G0.138720.699
5_L103_D0.138370.698
94_W127_I0.138330.697
276_E282_K0.138030.696
270_P295_F0.137830.695
109_L113_P0.137560.694
251_V268_I0.137480.693
288_A292_S0.137360.693
22_L156_F0.136870.690
111_S115_G0.135340.682
63_N185_R0.135150.681
20_A127_I0.135010.681
66_F75_L0.1350.681
11_L34_V0.133940.675
172_L251_V0.133710.674
221_L244_T0.133540.673
36_W268_I0.133260.672
248_W273_V0.133230.672
262_C265_P0.133010.671
181_E189_T0.132560.668
121_F150_M0.132350.667
200_F219_F0.132150.666
66_F286_V0.132120.666
182_L217_H0.131630.664
148_K289_P0.131440.663
12_S31_G0.131370.662
64_G84_P0.131330.662
60_R216_D0.131270.662
208_I215_L0.130840.660
141_Y154_L0.13050.658
79_G186_L0.130120.656
116_E122_D0.130110.656
161_N170_H0.130080.656
10_G135_G0.129660.654
51_G156_F0.129250.652
14_V23_T0.129090.651
61_I75_L0.1290.650
25_L34_V0.128790.649
87_G119_Y0.128640.649
87_G117_E0.128620.648
53_I141_Y0.128620.648
32_R236_S0.128090.646
215_L251_V0.128030.646
18_Y21_E0.127940.645
77_W89_A0.127490.643
64_G87_G0.127350.642
65_R278_N0.127060.641
66_F278_N0.126860.640
63_N79_G0.126790.639
143_V154_L0.126660.639
176_A195_V0.125550.633
119_Y150_M0.125340.632
250_V274_P0.124680.629
54_L58_P0.124040.625
24_S37_Q0.123980.625
172_L266_I0.123890.625
154_L246_F0.123770.624
21_E52_P0.123160.621
56_P87_G0.123160.621
44_Y51_G0.12280.619
155_G278_N0.12230.617
99_Q104_S0.122120.616
85_I90_R0.121940.615
231_L268_I0.121730.614
227_P231_L0.121720.614
111_S123_F0.121540.613
264_E268_I0.121290.612
13_A131_L0.12090.610
92_K116_E0.120310.607
260_Y264_E0.120070.605
62_R274_P0.120010.605
134_N300_T0.119830.604
76_P84_P0.119770.604
15_I22_L0.11950.602
58_P250_V0.119460.602
20_A54_L0.11940.602
22_L25_L0.119390.602
5_L13_A0.119060.600
229_I249_L0.118830.599
53_I129_Y0.118380.597
86_H252_W0.118220.596
87_G90_R0.11810.595
265_P269_E0.117920.595
38_P44_Y0.117790.594
189_T282_K0.117720.594
14_V17_E0.117610.593
98_E106_S0.117590.593
175_P227_P0.117580.593
260_Y263_I0.116970.590
29_G32_R0.116730.589
56_P111_S0.11630.586
19_G94_W0.115970.585
186_L256_F0.115590.583
137_L158_P0.115470.582
78_N81_Y0.115460.582
218_C271_D0.115140.581
241_E298_R0.115080.580
75_L84_P0.115020.580
77_W81_Y0.114770.579
155_G158_P0.114710.578
132_D226_R0.114530.577
174_V231_L0.114390.577
145_N150_M0.114050.575
244_T270_P0.113580.573
242_F299_Y0.113560.573
58_P216_D0.113490.572
60_R269_E0.113440.572
87_G289_P0.113330.571
141_Y156_F0.113280.571
214_G217_H0.113160.571
208_I251_V0.112970.570
292_S296_S0.112550.567
7_N133_E0.111990.565
25_L240_L0.11190.564
34_V238_I0.111870.564
12_S28_K0.111750.563
247_P283_G0.111570.563
285_I293_Y0.111520.562
55_F125_L0.111480.562
79_G185_R0.111450.562
271_D274_P0.111320.561
88_F123_F0.111030.560
269_E274_P0.110950.559
264_E272_F0.110890.559
156_F297_T0.110820.559
55_F88_F0.110520.557
157_H269_E0.110220.556
250_V270_P0.110070.555
109_L117_E0.109850.554
271_D275_D0.109840.554
61_I64_G0.109810.554
32_R163_P0.109710.553
202_F215_L0.109660.553
37_Q44_Y0.108840.549
214_G253_T0.108820.549
139_I297_T0.108580.547
125_L141_Y0.108510.547
272_F284_L0.108460.547
225_G245_S0.108240.546
198_T201_D0.107970.544
127_I297_T0.107930.544
179_Y200_F0.107860.544
61_I66_F0.107460.542
176_A179_Y0.107380.541
3_I107_F0.106860.539
96_V99_Q0.106770.538
12_S24_S0.106750.538
277_A286_V0.106650.538
77_W84_P0.106630.538
36_W252_W0.106550.537
122_D145_N0.106310.536
193_A196_K0.106310.536
135_G300_T0.10620.535
16_P93_P0.105910.534
57_W276_E0.105820.534
52_P264_E0.105570.532
176_A203_R0.105550.532
173_Q232_R0.105420.532
58_P271_D0.105260.531
62_R279_N0.105250.531
21_E159_Y0.105050.530
248_W282_K0.105040.530
248_W271_D0.104750.528
96_V106_S0.104460.527
279_N282_K0.104410.526
269_E275_D0.104350.526
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
1z45A0.971000.137
3imhA0.961000.146
1nsxA0.971000.155
1lurA0.96331000.161
1snzA0.961000.163
3os7A0.98331000.172
3mwxA0.971000.175
1ygaA0.96671000.181
3q1nA0.93331000.203
3nreA0.91331000.206

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