GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
SNO - SNO glutamine amidotransferase family
Pfam: PF01174 (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: CL0014
Length: 188
Sequences: 11304
Seq/Len: 60.13
HH_delta: 0.163 (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
63_F69_K1.472853.121
81_L162_I1.30012.755
82_A135_I1.15952.457
180_E184_E1.069512.267
145_E158_R1.053992.234
18_L180_E1.053672.233
57_F61_R1.043552.212
78_L164_A1.031742.187
147_L158_R1.027242.177
15_L38_I0.999352.118
17_R176_T0.997622.114
157_V164_A0.962272.039
15_L20_A0.934921.981
146_V149_E0.93051.972
12_I16_E0.910751.930
60_L80_L0.907791.924
58_E61_R0.891841.890
146_V154_I0.861931.827
13_R16_E0.855841.814
62_E66_S0.852341.806
84_E99_T0.852151.806
66_S69_K0.848511.798
75_C168_H0.820561.739
88_Q136_E0.80571.707
37_L63_F0.79951.694
36_G182_F0.797361.690
32_E62_E0.791891.678
177_R180_E0.78531.664
148_A156_A0.781611.656
83_K94_G0.763261.618
14_M176_T0.762081.615
158_R163_L0.753971.598
61_R65_R0.751641.593
23_V34_L0.73651.561
58_E62_E0.718151.522
135_I157_V0.711811.509
64_I71_V0.705871.496
62_E65_R0.704551.493
72_W165_T0.692031.467
82_A157_V0.679331.440
156_A165_T0.677451.436
83_K97_D0.674141.429
57_F84_E0.667711.415
64_I162_I0.663531.406
20_A183_L0.659771.398
81_L164_A0.649131.376
143_G159_Q0.64281.362
36_G70_P0.635491.347
64_I85_V0.624491.323
137_E149_E0.615451.304
86_E101_R0.599961.271
73_G81_L0.581271.232
85_V144_V0.579051.227
144_V157_V0.57511.219
59_P62_E0.569891.208
47_I88_Q0.569021.206
14_M18_L0.564811.197
19_G22_V0.558211.183
37_L69_K0.554941.176
16_E22_V0.553781.174
57_F83_K0.552781.171
61_R84_E0.551161.168
36_G183_L0.544381.154
39_I60_L0.541121.147
64_I95_L0.534051.132
93_L153_K0.533971.132
34_L37_L0.532361.128
23_V30_D0.531771.127
134_V153_K0.524361.111
31_L59_P0.521481.105
84_E89_G0.518481.099
174_D177_R0.512481.086
27_T30_D0.508711.078
136_E139_G0.506961.074
90_Q136_E0.501991.064
82_A87_G0.497511.054
38_I72_W0.494061.047
56_L59_P0.489121.037
85_V162_I0.487261.033
25_V34_L0.482941.023
86_E99_T0.480981.019
59_P63_F0.475091.007
12_I22_V0.464770.985
78_L135_I0.463350.982
32_E66_S0.463340.982
139_G142_E0.462240.980
176_T180_E0.459980.975
60_L71_V0.457170.969
42_G76_A0.456110.967
12_I24_E0.45020.954
72_W178_I0.450090.954
127_A131_R0.447580.949
18_L183_L0.442720.938
14_M17_R0.441510.936
65_R160_G0.440480.933
82_A100_V0.436520.925
147_L156_A0.435440.923
158_R181_Y0.428530.908
18_L176_T0.423590.898
139_G144_V0.421710.894
71_V162_I0.420890.892
32_E69_K0.420040.890
73_G77_G0.405760.860
63_F71_V0.404940.858
27_T55_G0.404230.857
16_E21_E0.403210.855
37_L59_P0.402370.853
20_A36_G0.402170.852
63_F66_S0.402110.852
45_T53_R0.398220.844
31_L34_L0.398040.844
37_L71_V0.393120.833
44_S53_R0.391850.830
149_E152_G0.390710.828
122_G174_D0.388870.824
75_C79_I0.387990.822
147_L163_L0.386790.820
128_V131_R0.386730.820
86_E89_G0.385430.817
41_G75_C0.383990.814
28_P59_P0.383530.813
70_P161_N0.379340.804
137_E146_V0.377260.800
104_A151_D0.376770.798
28_P55_G0.375630.796
131_R134_V0.374530.794
49_K53_R0.373610.792
78_L157_V0.372170.789
55_G58_E0.368590.781
119_P149_E0.364560.773
61_R64_I0.364150.772
163_L182_F0.36270.769
25_V30_D0.359760.762
18_L179_H0.357810.758
57_F93_L0.35290.748
89_G135_I0.352820.748
130_I133_P0.351460.745
120_G181_Y0.349320.740
126_P173_D0.348650.739
181_Y184_E0.348240.738
57_F80_L0.347020.735
14_M179_H0.346760.735
177_R181_Y0.346150.734
53_R57_F0.345180.732
74_T179_H0.344150.729
39_I71_V0.34090.722
161_N181_Y0.338880.718
146_V155_V0.336490.713
78_L82_A0.335920.712
54_Y76_A0.335080.710
23_V33_G0.334840.710
128_V133_P0.334320.709
79_I166_S0.333940.708
150_L153_K0.333440.707
129_F133_P0.332950.706
148_A167_F0.33230.704
138_V146_V0.33150.703
76_A80_L0.329990.699
54_Y80_L0.326440.692
28_P32_E0.32330.685
39_I80_L0.322430.683
13_R17_R0.322020.682
30_D34_L0.322010.682
34_L63_F0.320580.679
98_I103_N0.320390.679
119_P123_E0.320240.679
41_G168_H0.32010.678
74_T79_I0.31830.675
101_R104_A0.317260.672
54_Y57_F0.316740.671
96_L162_I0.31530.668
135_I156_A0.314320.666
90_Q134_V0.31260.662
64_I160_G0.311970.661
14_M173_D0.309340.656
115_D158_R0.308570.654
166_S170_E0.308550.654
15_L183_L0.307320.651
71_V95_L0.306950.651
100_V126_P0.306220.649
82_A98_I0.306050.649
22_V38_I0.303510.643
91_P94_G0.303320.643
55_G59_P0.300640.637
92_L98_I0.298570.633
118_I156_A0.297460.630
126_P177_R0.296260.628
128_V171_L0.295840.627
95_L98_I0.294660.624
83_K99_T0.294390.624
29_E32_E0.291720.618
87_G139_G0.29120.617
120_G123_E0.290580.616
46_T76_A0.288180.611
85_V160_G0.287580.609
71_V81_L0.28680.608
29_E33_G0.286280.607
12_I15_L0.286260.607
93_L97_D0.286130.606
167_F178_I0.283620.601
82_A139_G0.283460.601
32_E63_F0.283290.600
34_L69_K0.282460.599
94_G97_D0.281690.597
129_F155_V0.28140.596
89_G92_L0.280930.595
15_L22_V0.28060.595
84_E91_P0.28030.594
116_L119_P0.279550.592
118_I148_A0.279320.592
146_V157_V0.277640.588
15_L179_H0.27510.583
116_L163_L0.273140.579
92_L95_L0.273060.579
115_D119_P0.272830.578
165_T169_P0.270920.574
128_V173_D0.269730.572
97_D103_N0.269650.571
36_G63_F0.267810.568
93_L96_L0.26260.557
26_R54_Y0.259560.550
39_I77_G0.258950.549
131_R135_I0.258790.548
114_A117_D0.258670.548
43_E76_A0.258140.547
20_A23_V0.257430.546
15_L18_L0.25740.545
54_Y58_E0.257380.545
78_L134_V0.256490.544
23_V35_D0.251410.533
103_N154_I0.251360.533
167_F170_E0.251080.532
35_D69_K0.249940.530
74_T165_T0.249330.528
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
1q7rA0.97871000.163
2nv0A0.97871000.168
2ywjA0.96281000.17
2issD0.97341000.177
2abwA0.97871000.186
2ywdA0.97341000.205
1jvnA0.9841000.256
4gudA0.95741000.259
3fijA0.9841000.278
3m3pA0.91491000.283

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