GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Gln-synt_C - Glutamine synthetase catalytic domain
Pfam: PF00120 (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: CL0286
Length: 259
Sequences: 3235
Seq/Len: 12.49
HH_delta: 0.002 (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
150_I178_F0.796784.265
73_E127_H0.733693.927
13_E17_E0.601333.219
177_H180_A0.59083.163
31_Y93_G0.566983.035
73_E126_K0.555222.972
99_I116_F0.535082.864
13_E16_E0.524662.809
161_L174_L0.524162.806
150_I255_I0.514142.752
108_E112_N0.477152.554
104_C108_E0.47712.554
11_V257_A0.475032.543
120_I131_A0.451662.418
104_C112_N0.449652.407
81_A119_I0.43292.317
70_F74_I0.419442.245
154_D157_D0.398362.132
193_T251_A0.395052.115
77_A123_V0.393232.105
24_V252_L0.389652.086
32_L70_F0.384542.058
246_A251_A0.373181.998
173_E177_H0.356411.908
23_K103_P0.356311.907
78_L119_I0.348741.867
105_D108_E0.344371.843
116_F120_I0.34391.841
74_I120_I0.341681.829
12_L107_L0.336091.799
109_A112_N0.334291.789
33_F138_F0.332361.779
77_A80_Q0.330431.769
185_H258_A0.330041.767
67_G97_Y0.325031.740
192_F254_A0.319571.711
12_L106_P0.31831.704
87_Q100_N0.308581.652
15_L22_F0.307751.647
101_L109_A0.306411.640
134_M201_K0.305431.635
31_Y144_S0.301611.615
215_W226_I0.301611.615
154_D159_K0.290081.553
15_L18_M0.287181.537
23_K153_W0.282681.513
104_C109_A0.273771.466
84_P102_G0.271661.454
83_I115_L0.271461.453
12_L105_D0.270511.448
34_D129_L0.269981.445
171_L175_A0.269611.443
9_K107_L0.269521.443
187_P190_T0.264051.413
11_V14_R0.263441.410
11_V253_A0.26261.406
16_E21_S0.261271.399
174_L177_H0.258831.386
134_M198_N0.25841.383
28_L113_L0.258281.383
91_E98_E0.258251.382
78_L83_I0.257661.379
179_L237_I0.25641.373
75_V88_I0.254281.361
68_E72_E0.253751.358
35_R125_R0.252761.353
22_F256_L0.251341.345
20_L161_L0.250411.340
110_A252_L0.248661.331
7_I253_A0.248591.331
73_E77_A0.246631.320
70_F123_V0.244971.311
189_L193_T0.244961.311
33_F132_T0.244671.310
173_E176_R0.237851.273
239_N255_I0.236211.264
93_G142_N0.233661.251
21_S105_D0.233471.250
77_A119_I0.233441.250
77_A126_K0.231181.238
135_P245_D0.229741.230
148_L255_I0.229371.228
190_T241_L0.226551.213
14_R257_A0.224351.201
91_E147_H0.224151.200
32_L67_G0.221671.187
167_G176_R0.221171.184
183_L224_I0.216121.157
31_Y142_N0.215361.153
3_C6_S0.214511.148
163_Y170_G0.213421.142
9_K13_E0.212261.136
27_E91_E0.21161.133
113_L146_M0.210931.129
185_H188_A0.207651.112
196_T245_D0.205031.098
189_L254_A0.204581.095
70_F127_H0.203441.089
81_A115_L0.20231.083
178_F255_I0.202281.083
86_E102_G0.20061.074
199_S243_D0.199841.070
84_P112_N0.199711.069
135_P243_D0.199671.069
176_R180_A0.199251.067
76_D79_E0.198751.064
10_R14_R0.198131.061
25_G100_N0.194941.044
20_L154_D0.194341.040
124_A131_A0.193271.035
224_I237_I0.19271.032
21_S152_L0.192431.030
32_L124_A0.19171.026
8_L12_L0.190921.022
8_L106_P0.190661.021
27_E98_E0.19011.018
123_V127_H0.189441.014
6_S9_K0.188281.008
30_F74_I0.188191.007
92_V142_N0.187881.006
94_P141_D0.185120.991
189_L258_A0.18430.987
70_F129_L0.182240.976
8_L253_A0.180860.968
152_L161_L0.180340.965
26_F146_M0.178970.958
194_A199_S0.17830.954
220_R225_R0.177440.950
75_V85_V0.176720.946
98_E147_H0.176410.944
6_S10_R0.176110.943
169_A217_Y0.173990.931
29_E91_E0.172990.926
32_L129_L0.172790.925
15_L20_L0.172650.924
96_Q144_S0.17210.921
22_F150_I0.172060.921
32_L131_A0.171770.919
182_L239_N0.171620.919
119_I123_V0.171370.917
58_Y89_H0.171350.917
148_L251_A0.170390.912
223_A241_L0.170330.912
135_P199_S0.169450.907
7_I11_V0.169310.906
173_E180_A0.169290.906
186_A223_A0.168930.904
12_L16_E0.168850.904
21_S153_W0.168620.903
242_P251_A0.167360.896
17_E161_L0.167120.895
20_L174_L0.166830.893
42_P54_D0.166310.890
143_G202_R0.166030.889
204_V207_S0.165160.884
78_L116_F0.164470.880
3_C7_I0.163440.875
11_V15_L0.163170.873
148_L252_L0.163050.873
14_R18_M0.160780.861
136_K143_G0.160210.858
7_I10_R0.159410.853
146_M246_A0.159020.851
24_V148_L0.158680.849
186_A190_T0.158140.847
66_A125_R0.158080.846
210_P240_R0.157870.845
198_N201_K0.157290.842
20_L152_L0.156290.837
73_E123_V0.156110.836
74_I99_I0.155920.835
179_L224_I0.155380.832
12_L256_L0.153820.823
83_I112_N0.153570.822
220_R240_R0.15350.822
214_S222_A0.153220.820
32_L97_Y0.152590.817
162_F178_F0.152570.817
187_P213_I0.150070.803
72_E76_D0.149880.802
180_A184_K0.1490.798
169_A176_R0.148970.797
24_V178_F0.147740.791
185_H191_A0.147390.789
225_R238_E0.147090.787
182_L241_L0.146730.785
242_P246_A0.146580.785
9_K21_S0.146480.784
186_A224_I0.145960.781
28_L101_L0.145930.781
24_V109_A0.1450.776
36_D40_G0.144930.776
236_R240_R0.144880.776
84_P104_C0.143030.766
169_A215_W0.141640.758
188_A191_A0.141560.758
35_R128_G0.141110.755
8_L107_L0.140360.751
91_E149_H0.140320.751
220_R238_E0.140190.750
182_L255_I0.140170.750
101_L116_F0.140090.750
27_E149_H0.139970.749
69_D127_H0.139490.747
89_H92_V0.13910.745
28_L244_A0.138960.744
18_M161_L0.138710.743
77_A81_A0.138630.742
162_F175_A0.138470.741
229_G234_G0.138440.741
68_E76_D0.13780.738
154_D174_L0.136840.733
14_R17_E0.136640.731
150_I182_L0.136610.731
87_Q160_N0.136280.730
84_P108_E0.135490.725
23_K151_S0.134970.723
180_A183_L0.134950.722
27_E147_H0.134720.721
193_T241_L0.134370.719
191_A243_D0.133990.717
176_R215_W0.133770.716
135_P196_T0.133760.716
172_S175_A0.133660.715
15_L256_L0.133440.714
109_A246_A0.13330.714
24_V150_I0.133180.713
204_V211_T0.133010.712
24_V110_A0.13230.708
76_D80_Q0.131970.706
83_I116_F0.131610.705
103_P106_P0.131530.704
217_Y226_I0.131230.702
210_P221_S0.131120.702
146_M227_P0.130840.700
42_P45_S0.130790.700
109_A113_L0.130680.700
146_M208_W0.130280.697
181_G191_A0.129880.695
185_H189_L0.129860.695
174_L180_A0.129590.694
59_Y218_D0.129460.693
92_V208_W0.129370.693
26_F252_L0.129020.691
92_V207_S0.128670.689
142_N205_P0.128070.686
37_D40_G0.12780.684
165_P168_P0.127770.684
37_D46_G0.127380.682
138_F141_D0.12690.679
23_K152_L0.126380.677
205_P211_T0.125560.672
177_H187_P0.125330.671
106_P256_L0.125270.671
149_H222_A0.125030.669
72_E88_I0.125010.669
213_I223_A0.124930.669
221_S240_R0.124810.668
65_D122_E0.124370.666
63_P71_L0.124130.664
21_S46_G0.124030.664
62_S68_E0.123770.663
38_D41_W0.123320.660
42_P46_G0.123180.659
83_I101_L0.122250.654
153_W161_L0.122120.654
55_Y58_Y0.122040.653
32_L74_I0.121820.652
94_P138_F0.121690.651
85_V99_I0.121640.651
36_D41_W0.12140.650
139_S207_S0.121270.649
152_L256_L0.121270.649
7_I15_L0.120870.647
75_V79_E0.120660.646
15_L152_L0.120080.643
177_H184_K0.120080.643
75_V100_N0.119950.642
254_A258_A0.119920.642
182_L237_I0.119880.642
57_G63_P0.119020.637
117_K121_K0.118990.637
182_L224_I0.118940.637
86_E103_P0.118910.637
24_V106_P0.118520.634
140_G207_S0.118320.633
7_I257_A0.118260.633
75_V99_I0.118070.632
188_A193_T0.118040.632
203_L208_W0.117550.629
78_L85_V0.117520.629
58_Y208_W0.117420.629
89_H207_S0.117230.628
159_K166_D0.11720.627
221_S225_R0.11710.627
191_A200_Y0.117050.627
188_A196_T0.11670.625
151_S236_R0.116630.624
29_E147_H0.116610.624
36_D130_T0.116340.623
53_Q56_G0.11590.620
87_Q101_L0.11590.620
98_E149_H0.115770.620
123_V126_K0.115680.619
190_T213_I0.115460.618
122_E125_R0.115270.617
229_G232_P0.115270.617
134_M210_P0.114880.615
251_A254_A0.11470.614
154_D161_L0.114250.612
113_L252_L0.114160.611
41_W46_G0.114040.610
22_F152_L0.113980.610
195_P199_S0.113690.609
38_D45_S0.113370.607
112_N255_I0.113140.606
6_S13_E0.113080.605
150_I239_N0.1130.605
197_V201_K0.112940.605
12_L22_F0.112870.604
164_D168_P0.112810.604
169_A173_E0.112680.603
31_Y141_D0.112570.603
158_G163_Y0.112190.601
59_Y208_W0.111480.597
93_G144_S0.111060.595
164_D173_E0.11060.592
116_F121_K0.110380.591
153_W164_D0.110360.591
253_A257_A0.110260.590
152_L174_L0.110210.590
153_W157_D0.110130.590
110_A248_P0.10970.587
36_D42_P0.109540.586
27_E238_E0.109520.586
172_S179_L0.109470.586
62_S118_E0.109280.585
113_L121_K0.109110.584
12_L15_L0.108840.583
103_P236_R0.108780.582
25_G103_P0.10850.581
150_I256_L0.108470.581
35_R130_T0.107650.576
176_R187_P0.107620.576
135_P143_G0.107510.576
166_D169_A0.10750.575
245_D251_A0.107370.575
134_M197_V0.107250.574
189_L251_A0.107250.574
10_R13_E0.10690.572
171_L174_L0.106880.572
61_L118_E0.106470.570
175_A178_F0.106050.568
95_G191_A0.105950.567
26_F246_A0.105880.567
58_Y90_H0.105840.567
214_S249_Y0.105780.566
114_V216_G0.105770.566
4_P7_I0.105630.565
57_G60_S0.105150.563
172_S177_H0.105130.563
229_G235_T0.105120.563
175_A215_W0.105020.562
186_A213_I0.104980.562
33_F130_T0.104840.561
227_P236_R0.10480.561
87_Q99_I0.104780.561
251_A255_I0.104650.560
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
3qajA0.96141000.002
3ng0A0.98841000.018
4hppA0.93821000.019
4acfA0.99231000.029
1f52A0.98841000.047
2j9iA0.91891000.127
4baxA0.92281000.146
2ojwA0.92281000.146
3fkyA0.91891000.157
2d3aA0.92281000.161

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