GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Asp_Glu_race - AspGluHydantoin racemase
Pfam: PF01177 (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: CL0399
Length: 216
Sequences: 3654
Seq/Len: 16.92
HH_delta: 0.199 (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
160_I195_A0.620582.960
101_E214_A0.618792.951
3_V16_L0.606492.893
111_G170_L0.594232.834
70_V215_A0.57712.752
68_A215_A0.551862.632
23_R67_D0.547182.610
81_D84_R0.539342.572
107_G178_A0.508642.426
14_R18_R0.484612.311
55_I87_R0.48012.290
66_V69_I0.479022.285
15_E18_R0.474662.264
62_E89_G0.459872.193
59_E87_R0.421972.013
108_K177_D0.419592.001
111_G176_A0.411531.963
58_A69_I0.400391.910
122_P125_E0.393921.879
102_A105_A0.380161.813
13_E27_E0.375151.789
69_I90_I0.374581.787
116_Y120_K0.373781.783
109_R137_E0.36011.717
97_E127_F0.361.717
60_K64_A0.348611.663
62_E90_I0.342831.635
109_R177_D0.342321.633
53_R56_E0.339191.618
114_T119_E0.337521.610
205_I210_A0.336691.606
68_A93_V0.333081.589
88_V92_V0.32571.553
178_A205_I0.325341.552
19_M213_W0.324641.548
122_P126_E0.324251.546
2_G66_V0.323051.541
51_L82_E0.321.526
165_E168_R0.312991.493
102_A210_A0.312531.491
102_A213_W0.3081.469
70_V211_A0.305871.459
150_I189_L0.304981.455
59_E63_K0.301661.439
16_L212_A0.299941.431
154_D157_P0.29941.428
109_R139_V0.297941.421
15_E209_Q0.296621.415
164_A168_R0.296211.413
16_L27_E0.292511.395
111_G179_I0.292381.394
138_V169_E0.28111.341
126_E130_E0.280091.336
107_G177_D0.277851.325
98_A210_A0.27751.323
162_I165_E0.27631.318
71_I92_V0.275051.312
62_E88_V0.274511.309
167_A179_I0.271921.297
125_E129_E0.269411.285
187_P208_N0.265461.266
209_Q213_W0.261371.247
73_C183_C0.260621.243
51_L55_I0.258111.231
168_R199_E0.255841.220
161_E165_E0.251151.198
120_K139_V0.248821.187
59_E88_V0.243691.162
55_I58_A0.243591.162
10_L14_R0.242621.157
81_D86_E0.242131.155
99_A207_S0.238111.136
73_C76_A0.236771.129
80_V84_R0.235861.125
39_R43_E0.233741.115
169_E173_E0.231041.102
99_A103_A0.227421.085
82_E86_E0.226941.082
100_L128_I0.226811.082
109_R176_A0.226011.078
103_A205_I0.224531.071
144_N169_E0.224171.069
126_E129_E0.223821.067
168_R173_E0.223511.066
125_E140_A0.222781.063
11_T187_P0.222521.061
162_I166_A0.221751.058
113_L179_I0.221651.057
101_E131_A0.219411.046
58_A88_V0.21561.028
165_E169_E0.214951.025
157_P160_I0.214451.023
1_I23_R0.21361.019
178_A203_P0.211061.007
59_E62_E0.210011.002
103_A107_G0.209851.001
155_I159_Q0.209571.000
75_S183_C0.20950.999
16_L215_A0.204970.978
112_V119_E0.20290.968
3_V13_E0.202410.965
58_A92_V0.201940.963
197_E202_I0.201680.962
146_I186_L0.200530.956
150_I186_L0.199870.953
109_R175_G0.197830.944
56_E60_K0.19690.939
55_I82_E0.194950.930
15_E208_N0.193990.925
84_R92_V0.193140.921
207_S210_A0.191930.915
106_G203_P0.191570.914
179_I204_V0.190070.907
194_E198_E0.189730.905
13_E16_L0.189590.904
55_I59_E0.189340.903
50_I117_T0.189070.902
12_V211_A0.1890.901
40_I43_E0.187770.896
158_E161_E0.18660.890
176_A179_I0.186330.889
94_G97_E0.185310.884
160_I192_A0.184170.878
77_H94_G0.183880.877
60_K63_K0.183870.877
78_P121_S0.183720.876
12_V72_A0.183510.875
5_S8_S0.18330.874
149_V159_Q0.182370.870
43_E53_R0.181270.865
148_D186_L0.180850.863
127_F130_E0.18050.861
104_K131_A0.179410.856
76_A183_C0.178470.851
6_P9_N0.177890.848
179_I197_E0.17780.848
2_G61_L0.177780.848
51_L79_F0.176930.844
39_R53_R0.176850.843
75_S115_T0.17580.838
50_I54_L0.175680.838
161_E164_A0.175350.836
13_E30_F0.174070.830
160_I164_A0.173950.830
71_I83_L0.172380.822
148_D151_E0.172270.822
102_A214_A0.171510.818
11_T208_N0.171130.816
58_A62_E0.170940.815
5_S9_N0.17080.815
52_D56_E0.170740.814
51_L83_L0.170430.813
198_E201_G0.168320.803
11_T188_L0.167930.801
30_F57_A0.167590.799
74_N124_Y0.167370.798
80_V92_V0.167240.798
93_V214_A0.166590.795
74_N183_C0.166560.794
123_L127_F0.166380.794
96_V124_Y0.165290.788
69_I88_V0.164450.784
175_G202_I0.163940.782
144_N166_A0.163040.778
19_M212_A0.162980.777
5_S115_T0.162950.777
177_D207_S0.162280.774
113_L167_A0.160480.765
194_E199_E0.160310.765
97_E101_E0.160210.764
98_A101_E0.159930.763
54_L57_A0.159690.762
61_L66_V0.158510.756
103_A110_I0.157370.751
7_N30_F0.1570.749
29_Y64_A0.15620.745
111_G174_D0.155730.743
79_F117_T0.155340.741
84_R97_E0.153480.732
157_P161_E0.153450.732
192_A196_L0.153220.731
84_R127_F0.152910.729
58_A61_L0.152910.729
3_V12_V0.152190.726
9_N12_V0.152050.725
193_I204_V0.15190.724
134_I139_V0.151630.723
31_H57_A0.151370.722
99_A138_V0.15080.719
163_L166_A0.149840.715
21_P24_E0.149620.714
38_D186_L0.149570.713
160_I196_L0.148830.710
80_V94_G0.147490.703
110_I177_D0.147470.703
20_L23_R0.147160.702
160_I199_E0.146490.699
128_I138_V0.146230.697
164_A167_A0.145890.696
95_I184_T0.145830.696
50_I79_F0.145610.694
99_A210_A0.14560.694
108_K133_G0.145350.693
149_V189_L0.14520.693
112_V182_G0.144630.690
110_I178_A0.144150.688
41_K51_L0.143790.686
15_E19_M0.143740.686
164_A169_E0.143560.685
73_C186_L0.143480.684
13_E17_R0.143360.684
197_E201_G0.142840.681
105_A161_E0.142680.680
74_N184_T0.142240.678
99_A180_I0.1420.677
103_A134_I0.141580.675
195_A198_E0.141480.675
106_G178_A0.141330.674
11_T14_R0.141280.674
29_Y32_D0.140920.672
75_S96_V0.140690.671
210_A213_W0.140650.671
11_T15_E0.140580.670
119_E123_L0.140560.670
19_M22_A0.140540.670
4_I29_Y0.14040.670
110_I114_T0.139690.666
14_R17_R0.139480.665
4_I73_C0.139430.665
115_T118_T0.139340.665
192_A195_A0.139250.664
19_M164_A0.139090.663
19_M209_Q0.138930.663
62_E65_G0.138810.662
61_L69_I0.138190.659
33_T36_F0.137960.658
27_E67_D0.137890.658
38_D56_E0.137760.657
163_L196_L0.137170.654
43_E152_L0.137160.654
52_D203_P0.1370.653
9_N13_E0.136990.653
96_V123_L0.136860.653
122_P129_E0.136420.651
166_A170_L0.136380.650
179_I202_I0.13580.648
84_R131_A0.135680.647
32_D185_H0.13510.644
93_V215_A0.135060.644
159_Q163_L0.134880.643
158_E195_A0.134760.643
24_E27_E0.134480.641
183_C186_L0.134410.641
82_E87_R0.134250.640
8_S39_R0.133730.638
166_A169_E0.133610.637
191_G194_E0.133350.636
75_S184_T0.133270.636
11_T37_P0.133260.636
75_S78_P0.132740.633
4_I54_L0.132740.633
75_S185_H0.132280.631
176_A197_E0.132090.630
27_E32_D0.131910.629
9_N29_Y0.131720.628
110_I138_V0.131680.628
4_I78_P0.131330.626
38_D116_Y0.131090.625
110_I134_I0.130870.624
74_N95_I0.130790.624
20_L67_D0.130730.623
100_L127_F0.130420.622
100_L131_A0.130280.621
164_A199_E0.130010.620
94_G127_F0.129570.618
41_K79_F0.129270.617
53_R57_A0.129090.616
104_K180_I0.128990.615
57_A69_I0.128990.615
70_V93_V0.128960.615
63_K130_E0.128710.614
198_E202_I0.128660.614
107_G205_I0.128570.613
9_N31_H0.128440.613
139_V174_D0.12840.612
4_I76_A0.128320.612
121_S207_S0.128310.612
17_R30_F0.128140.611
95_I211_A0.128090.611
74_N185_H0.127860.610
50_I76_A0.12720.607
4_I166_A0.12720.607
163_L186_L0.127120.606
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
3ojcA0.9631000.199
2vvtA0.95371000.202
3s81A0.95831000.208
3ixlA0.92591000.209
2jfqA0.95371000.209
1zuwA0.95371000.212
1jflA0.95831000.212
3istA0.95371000.214
2dwuA0.95371000.215
2zskA0.93061000.217

Page generated in 0.0353 seconds.