GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
GATase - Glutamine amidotransferase class-I
Pfam: PF00117 (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: 192
Sequences: 13396
Seq/Len: 69.77
HH_delta: 0.13 (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
94_V135_N1.542933.079
85_L166_I1.518423.030
86_A134_V1.271492.537
92_K135_N1.211552.418
145_E162_K1.183242.361
65_I84_I1.138432.272
32_D35_E1.104272.204
66_R70_E1.089522.174
161_H164_N1.08362.162
63_E66_R1.055332.106
145_E160_R1.019032.033
82_H168_G1.018082.032
146_V156_I1.017752.031
183_Q186_K1.000281.996
17_L47_I0.994371.984
147_L160_R0.963111.922
121_P180_G0.911661.819
146_V149_S0.886821.770
27_V43_Y0.872021.740
62_I66_R0.862351.721
19_E182_P0.8611.718
117_F188_F0.858581.713
159_I168_G0.817781.632
14_V18_R0.813861.624
68_A73_I0.812091.620
86_A159_I0.808051.612
56_Y87_H0.795681.588
15_R18_R0.794021.584
136_P149_S0.790011.576
46_I68_A0.788681.574
148_A158_A0.788191.573
82_H134_V0.786221.569
65_I75_I0.784851.566
20_L187_N0.782991.562
17_L22_I0.76891.534
180_G183_Q0.767751.532
72_K164_N0.763991.524
85_L168_G0.753821.504
40_L43_Y0.751191.499
94_V133_A0.73271.462
66_R88_A0.723091.443
62_I88_A0.718181.433
67_E70_E0.69861.394
76_L169_V0.69311.383
75_I85_L0.688051.373
140_L146_V0.666441.330
13_L78_I0.66521.327
79_C172_H0.659681.316
67_E71_R0.646531.290
143_G162_K0.64021.277
51_G80_L0.636411.270
62_I87_H0.620721.239
69_R89_L0.611631.220
86_A141_P0.6091.215
46_I73_I0.60131.200
89_L144_F0.596751.191
160_R167_Y0.593881.185
144_F161_H0.592791.183
47_I76_L0.578871.155
48_I75_I0.578531.154
17_L24_V0.577321.152
107_P123_S0.575061.147
69_R166_I0.572491.142
45_G189_F0.56891.135
144_F159_I0.567051.132
58_I80_L0.565411.128
63_E67_E0.564611.127
143_G161_H0.563191.124
105_N127_Y0.557021.111
93_V134_V0.556771.111
158_A171_F0.553761.105
48_I65_I0.552621.103
86_A91_G0.527721.053
77_G85_L0.525221.048
10_T28_R0.519921.037
48_I61_L0.518321.034
96_S99_K0.517441.033
143_G163_D0.516721.031
125_K179_P0.516551.031
183_Q187_N0.516371.030
124_F184_L0.514371.026
64_L67_E0.512971.024
89_L166_I0.511571.021
186_K189_F0.509911.017
16_A20_L0.508081.014
109_S149_S0.507691.013
116_L167_Y0.501421.001
54_S57_D0.497330.992
82_H159_I0.495990.990
45_G74_P0.494470.987
133_A155_P0.494160.986
134_V159_I0.493940.986
111_T149_S0.49370.985
120_L124_F0.490860.979
35_E40_L0.490660.979
25_E43_Y0.489360.976
90_G94_V0.485930.970
102_H131_S0.481060.960
58_I84_I0.480990.960
16_A19_E0.480470.959
31_S35_E0.480310.958
56_Y92_K0.478480.955
79_C83_Q0.477560.953
12_S15_R0.472350.943
110_E125_K0.472260.942
62_I84_I0.470790.939
150_S158_A0.47030.938
124_F180_G0.469860.938
78_I169_V0.466060.930
18_R24_V0.459410.917
111_T145_E0.456610.911
92_K136_P0.455540.909
34_E40_L0.455390.909
97_P155_P0.453750.905
109_S123_S0.453110.904
96_S133_A0.452230.902
88_A92_K0.451790.902
27_V31_S0.451380.901
149_S153_G0.450480.899
107_P125_K0.449690.897
69_R75_I0.446030.890
75_I166_I0.445540.889
119_G187_N0.445450.889
109_S151_S0.443840.886
127_Y177_S0.443540.885
33_F67_E0.433660.865
77_G81_G0.431620.861
108_I126_A0.431170.860
121_P124_F0.422850.844
87_H92_K0.418010.834
89_L161_H0.416190.830
41_D67_E0.414790.828
16_A182_P0.413720.826
22_I189_F0.410680.819
115_P122_E0.408570.815
83_Q170_Q0.403920.806
27_V42_D0.403630.805
110_E122_E0.403340.805
66_R69_R0.402930.804
167_Y188_F0.402910.804
17_L189_F0.399390.797
121_P179_P0.397710.794
182_P186_K0.397070.792
115_P160_R0.395580.789
18_R23_D0.393710.786
56_Y132_D0.392310.783
53_G56_Y0.391530.781
141_P144_F0.386080.770
95_P100_P0.385420.769
14_V26_V0.385380.769
158_A169_V0.38320.765
59_E63_E0.37930.757
46_I75_I0.377990.754
13_L185_L0.376530.751
64_L68_A0.375820.750
128_Q157_Q0.374630.748
104_G127_Y0.374120.747
70_E164_N0.373260.745
107_P126_A0.372390.743
72_K163_D0.372250.743
20_L189_F0.371150.741
140_L156_I0.368160.735
11_H15_R0.363210.725
117_F167_Y0.363120.725
142_E162_K0.360880.720
116_L120_L0.36060.720
27_V41_D0.359970.718
14_V24_V0.355140.709
102_H129_Y0.354630.708
16_A185_L0.354570.708
150_S153_G0.352970.704
25_E41_D0.351260.701
59_E62_I0.350480.699
30_D60_G0.348970.696
136_P146_V0.348640.696
68_A71_R0.346720.692
110_E124_F0.346010.690
108_I123_S0.344670.688
22_I45_G0.34410.687
61_L64_L0.343790.686
12_S16_A0.34330.685
148_A171_F0.342980.684
126_A184_L0.342660.684
11_H14_V0.342430.683
157_Q161_H0.341520.681
43_Y73_I0.34070.680
10_T14_V0.339920.678
60_G63_E0.339920.678
110_E149_S0.33660.672
45_G188_F0.336430.671
27_V35_E0.335950.670
52_P80_L0.335010.668
126_A171_F0.334110.667
146_V157_Q0.333860.666
147_L158_A0.333780.666
41_D71_R0.332890.664
108_I149_S0.329280.657
184_L188_F0.328990.656
68_A75_I0.328030.655
46_I64_L0.327330.653
158_A161_H0.326970.652
160_R188_F0.32690.652
20_L185_L0.326580.652
53_G57_D0.325050.649
21_G24_V0.324660.648
115_P167_Y0.322550.644
185_L188_F0.321510.642
80_L170_Q0.321150.641
60_G64_L0.320870.640
58_I62_I0.320680.640
150_S155_P0.320110.639
12_S175_F0.319490.638
147_L167_Y0.318890.636
111_T160_R0.318740.636
130_H170_Q0.317790.634
120_L187_N0.317760.634
105_N125_K0.315050.629
110_E123_S0.314710.628
65_I88_A0.314520.628
156_I159_I0.310870.620
170_Q174_E0.310830.620
109_S122_E0.308460.616
84_I88_A0.308260.615
43_Y46_I0.306850.612
184_L189_F0.302340.603
50_G175_F0.300750.600
184_L187_N0.29990.598
185_L189_F0.299830.598
13_L16_A0.298650.596
54_S132_D0.298530.596
70_E73_I0.297450.594
111_T147_L0.296870.592
69_R164_N0.296350.591
82_H86_A0.295940.591
109_S121_P0.29570.590
106_I125_K0.29530.589
169_V173_P0.294650.588
117_F158_A0.293180.585
106_I123_S0.293030.585
83_Q130_H0.292840.584
115_P118_Y0.292740.584
107_P148_A0.292580.584
112_P123_S0.292240.583
93_V132_D0.291180.581
64_L69_R0.290670.580
151_S155_P0.290090.579
41_D73_I0.289880.578
136_P142_E0.288010.575
96_S155_P0.28440.568
161_H166_I0.283490.566
158_A162_K0.283220.565
28_R31_S0.27980.558
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
3tqiA0.95311000.13
3uowA0.95831000.133
2ywbA0.94271000.143
1gpmA0.95311000.143
2vxoA0.94791000.156
3r75A0.93231000.169
2a9vA0.94791000.18
2lxnA0.92711000.182
2vpiA0.94791000.193
1qdlB0.95311000.194

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