GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Glt_symporter - Sodiumglutamate symporter
Pfam: PF03616 (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: CL0064
Length: 368
Sequences: 4673
Seq/Len: 12.7
HH_delta: 0.713 (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
115_A125_G0.312392.805
325_F335_Y0.295992.658
113_G117_L0.288022.586
109_I113_G0.26432.373
44_F49_L0.25392.280
84_K87_K0.243212.184
289_L293_L0.23842.141
319_M323_A0.233952.101
173_L177_P0.23292.091
145_P149_E0.227332.041
121_D124_F0.224722.018
329_R335_Y0.223362.006
44_F290_A0.214831.929
297_K300_V0.211051.895
302_A305_A0.209611.882
112_L116_K0.20571.847
252_G256_V0.19571.757
202_R206_E0.187821.687
328_F338_A0.186831.678
326_V330_V0.18381.651
336_D339_V0.182271.637
89_G93_V0.181431.629
85_L88_K0.178191.600
75_T257_G0.177161.591
110_V319_M0.175941.580
299_W303_D0.173871.561
307_P311_I0.171961.544
315_Q319_M0.1681.509
78_G254_M0.167341.503
298_L302_A0.16671.497
111_G129_G0.166581.496
328_F333_K0.166031.491
164_A167_G0.165361.485
111_G115_A0.164221.475
72_I75_T0.162611.460
177_P180_N0.161771.453
200_Y203_K0.161671.452
253_A256_V0.16161.451
146_T150_L0.15931.431
95_I331_M0.158981.428
323_A327_T0.156331.404
85_L158_S0.155751.399
177_P181_W0.154121.384
165_T168_L0.153341.377
327_T331_M0.151171.358
174_I177_P0.149621.344
278_D282_G0.148351.332
94_L98_L0.148081.330
153_W156_A0.14761.325
73_F285_L0.146191.313
112_L122_P0.145681.308
305_A309_L0.143421.288
204_G208_P0.142521.280
332_G335_Y0.142151.277
176_G179_A0.141981.275
329_R332_G0.141241.268
235_I239_L0.140911.265
257_G260_V0.140481.262
84_K88_K0.141.257
79_L257_G0.139671.254
204_G211_G0.139481.253
130_S143_F0.139251.250
147_F160_G0.139121.249
102_I109_I0.13821.241
149_E157_T0.137891.238
69_L283_I0.137031.231
307_P310_I0.136981.230
166_F169_V0.135741.219
203_K210_A0.135081.213
44_F48_P0.134911.212
72_I284_S0.134811.211
139_T142_A0.13471.210
160_G167_G0.134451.207
47_L56_G0.134081.204
316_T323_A0.133191.196
110_V113_G0.132151.187
306_L310_I0.132071.186
132_G138_G0.131571.182
120_L160_G0.131391.180
207_R265_D0.131311.179
97_L101_I0.129851.166
304_Y307_P0.129341.161
216_S220_I0.129071.159
63_T291_M0.128161.151
197_L202_R0.127151.142
150_L153_W0.126911.140
300_V303_D0.126731.138
164_A168_L0.125871.130
82_S88_K0.125841.130
146_T232_L0.125721.129
40_G292_A0.124631.119
222_H225_L0.124561.119
138_G167_G0.124411.117
164_A169_V0.124371.117
76_T82_S0.124211.115
326_V335_Y0.123811.112
100_A171_G0.122871.103
82_S262_N0.122771.102
317_I334_D0.122441.100
75_T253_A0.121971.095
50_I54_F0.121621.092
48_P293_L0.120381.081
220_I224_A0.119931.077
139_T164_A0.119681.075
118_L310_I0.119291.071
156_A160_G0.119061.069
254_M284_S0.117831.058
188_L191_K0.117711.057
335_Y339_V0.117171.052
112_L129_G0.116911.050
60_S239_L0.116711.048
82_S85_L0.116541.047
100_A167_G0.116041.042
92_A96_F0.116021.042
78_G129_G0.115831.040
142_A171_G0.115681.039
69_L284_S0.115511.037
168_L289_L0.115251.035
110_V318_L0.115151.034
175_G178_I0.114921.032
120_L128_A0.114731.030
321_L325_F0.114511.028
325_F329_R0.114161.025
77_I285_L0.11321.017
138_G164_A0.113081.015
35_P281_S0.1131.015
322_F326_V0.112731.012
330_V334_D0.112321.009
96_F331_M0.112021.006
92_A331_M0.111651.003
229_A233_G0.111631.002
250_F281_S0.111331.000
112_L115_A0.110330.991
69_L252_G0.110040.988
109_I112_L0.109970.988
145_P289_L0.109750.986
147_F157_T0.109650.985
186_G191_K0.109290.981
320_V324_Y0.109280.981
60_S63_T0.109260.981
44_F293_L0.109110.980
103_L322_F0.109040.979
134_T140_A0.108890.978
167_G248_P0.108630.976
114_L314_V0.108510.974
69_L257_G0.108490.974
258_I261_R0.108340.973
66_Q70_M0.108330.973
168_L171_G0.108160.971
96_F100_A0.107970.970
114_L311_I0.107910.969
140_A144_G0.107870.969
256_V292_A0.107680.967
96_F163_A0.107630.967
138_G165_T0.107570.966
101_I254_M0.107140.962
279_R282_G0.106510.956
51_L56_G0.106320.955
90_G94_L0.106220.954
180_N184_R0.105940.951
166_F307_P0.105810.950
77_I132_G0.105810.950
302_A306_L0.10560.948
50_I294_M0.105480.947
309_L313_A0.105380.946
79_L260_V0.105370.946
193_E196_E0.105360.946
251_V255_I0.10520.945
112_L125_G0.104890.942
206_E210_A0.104750.941
101_I170_V0.104520.939
114_L315_Q0.104370.937
74_F158_S0.10430.937
34_I42_L0.104190.936
41_G168_L0.103950.933
155_G277_I0.103810.932
58_S61_F0.103370.928
68_F72_I0.103350.928
327_T330_V0.103340.928
140_A161_M0.103320.928
141_A157_T0.103160.926
49_L296_L0.103090.926
78_G139_T0.103070.926
271_K275_K0.103060.925
179_A182_L0.102990.925
195_D199_E0.102880.924
222_H226_I0.102820.923
41_G164_A0.102520.921
144_G157_T0.102470.920
140_A164_A0.102430.920
229_A256_V0.102330.919
66_Q69_L0.10220.918
325_F330_V0.102150.917
69_L73_F0.101670.913
204_G207_R0.101490.911
115_A120_L0.101410.911
44_F80_G0.101370.910
61_F102_I0.101230.909
172_G176_G0.100920.906
41_G167_G0.100910.906
87_K91_K0.100420.902
178_I182_L0.100170.900
113_G116_K0.100050.898
161_M169_V0.099960.898
95_I338_A0.099790.896
282_G286_D0.099750.896
91_K94_L0.099680.895
235_I240_L0.099350.892
247_L252_G0.099340.892
117_L303_D0.09930.892
185_K201_L0.099250.891
65_L170_V0.099240.891
47_L294_M0.099190.891
253_A257_G0.098940.888
43_I313_A0.098760.887
66_Q157_T0.098730.887
93_V166_F0.098680.886
138_G142_A0.098620.886
215_T218_S0.09840.884
81_A248_P0.098330.883
81_A254_M0.098310.883
326_V329_R0.098270.882
235_I283_I0.09810.881
79_L263_I0.097940.880
123_L126_L0.097870.879
316_T320_V0.097860.879
162_A166_F0.097780.878
300_V304_Y0.097780.878
270_Y273_D0.097710.877
175_G180_N0.097570.876
51_L294_M0.097560.876
101_I147_F0.097460.875
72_I262_N0.097450.875
163_A167_G0.097280.874
140_A160_G0.097040.871
207_R211_G0.096840.870
65_L281_S0.096780.869
69_L74_F0.096660.868
299_W302_A0.096490.866
238_A249_L0.09620.864
192_K196_E0.096190.864
79_L258_I0.096010.862
322_F329_R0.095990.862
125_G129_G0.095950.862
61_F64_S0.095940.862
319_M322_F0.095740.860
42_L70_M0.095630.859
51_L59_I0.095610.859
154_E283_I0.09550.858
238_A241_K0.095470.857
138_G292_A0.095390.857
90_G305_A0.095360.856
216_S219_L0.095350.856
22_L113_G0.095070.854
202_R208_P0.094920.852
233_G287_L0.094870.852
164_A171_G0.094670.850
71_I253_A0.094670.850
321_L329_R0.094610.850
132_G315_Q0.094590.849
158_S251_V0.094570.849
165_T169_V0.094530.849
277_I296_L0.094460.848
169_V261_R0.094320.847
177_P210_A0.094230.846
172_G312_L0.09420.846
78_G257_G0.094190.846
167_G250_F0.094110.845
45_A178_I0.094050.845
201_L207_R0.093930.843
49_L54_F0.093830.843
146_T149_E0.093540.840
35_P87_K0.093530.840
116_K125_G0.093510.840
138_G293_L0.093510.840
208_P272_I0.093250.837
329_R333_K0.093190.837
223_L226_I0.092550.831
78_G293_L0.09240.830
175_G292_A0.092380.830
41_G138_G0.092360.829
309_L314_V0.09230.829
241_K280_I0.092040.827
85_L170_V0.092030.826
152_G321_L0.092010.826
201_L204_G0.091830.825
114_L117_L0.091830.825
128_A162_A0.09180.824
88_K91_K0.091770.824
41_G145_P0.091710.824
316_T319_M0.091610.823
133_F138_G0.091420.821
325_F328_F0.091330.820
127_L176_G0.091160.819
69_L288_F0.091150.819
35_P41_G0.091130.818
74_F257_G0.091110.818
140_A165_T0.090970.817
82_S261_R0.090830.816
167_G319_M0.090790.815
117_L154_E0.090750.815
143_F232_L0.090720.815
93_V97_L0.090690.814
291_M295_S0.090670.814
198_K222_H0.090620.814
64_S68_F0.090530.813
70_M146_T0.090470.812
143_F146_T0.090280.811
78_G289_L0.090170.810
257_G288_F0.090160.810
221_E225_L0.09010.809
59_I63_T0.090080.809
256_V260_V0.090020.808
320_V328_F0.089970.808
21_F306_L0.089940.808
318_L322_F0.089830.807
102_I117_L0.089770.806
31_K329_R0.089710.806
89_G97_L0.089680.805
221_E224_A0.08960.805
144_G147_F0.089350.802
83_L262_N0.089180.801
120_L125_G0.089030.799
84_K262_N0.088970.799
98_L299_W0.088850.798
224_A273_D0.088730.797
85_L155_G0.08870.797
51_L54_F0.088610.796
113_G330_V0.088580.795
70_M285_L0.088360.793
171_G258_I0.088330.793
148_E170_V0.088260.793
186_G189_K0.088220.792
173_L201_L0.08820.792
202_R210_A0.088190.792
305_A315_Q0.088150.792
86_L247_L0.088060.791
169_V180_N0.088010.790
130_S169_V0.08790.789
117_L326_V0.087830.789
214_I277_I0.087710.788
185_K188_L0.087630.787
181_W188_L0.08760.787
63_T86_L0.087530.786
142_A145_P0.087430.785
329_R338_A0.087420.785
133_F142_A0.087360.785
167_G171_G0.087270.784
334_D337_A0.087130.782
333_K336_D0.086970.781
114_L306_L0.086940.781
255_I327_T0.086940.781
93_V162_A0.086750.779
31_K43_I0.086730.779
111_G315_Q0.086690.778
128_A294_M0.086690.778
241_K256_V0.086650.778
70_M281_S0.086650.778
45_A48_P0.086520.777
167_G281_S0.08650.777
200_Y204_G0.086470.777
197_L232_L0.086470.777
259_I265_D0.086430.776
44_F75_T0.086350.775
146_T260_V0.086320.775
203_K309_L0.08630.775
51_L55_G0.086280.775
161_M265_D0.086270.775
192_K195_D0.086190.774
109_I271_K0.086080.773
79_L253_A0.085990.772
114_L310_I0.085960.772
114_L335_Y0.085820.771
114_L191_K0.08580.770
155_G329_R0.085780.770
193_E197_L0.085750.770
225_L255_I0.085540.768
69_L72_I0.085540.768
208_P211_G0.085470.768
98_L102_I0.08540.767
297_K309_L0.085380.767
176_G181_W0.085340.766
96_F327_T0.085320.766
103_L110_V0.085310.766
150_L154_E0.085310.766
191_K194_P0.085280.766
62_D320_V0.085250.766
91_K95_I0.085240.765
181_W208_P0.085240.765
329_R334_D0.085210.765
194_P322_F0.08520.765
138_G281_S0.085180.765
213_P266_K0.085150.765
218_S224_A0.085140.765
308_L311_I0.085090.764
45_A289_L0.085050.764
146_T165_T0.0850.763
118_L336_D0.084930.763
118_L190_P0.084860.762
143_F147_F0.084850.762
207_R214_I0.084830.762
258_I275_K0.084780.761
102_I191_K0.08470.761
188_L192_K0.084640.760
62_D260_V0.084620.760
74_F167_G0.084540.759
134_T143_F0.08450.759
318_L321_L0.084470.759
70_M141_A0.084450.758
65_L274_R0.084340.757
82_S274_R0.084330.757
206_E310_I0.084320.757
132_G142_A0.084170.756
162_A169_V0.084140.756
70_M129_G0.084080.755
307_P326_V0.084040.755
204_G210_A0.083930.754
133_F143_F0.083920.754
121_D223_L0.083850.753
77_I289_L0.083840.753
76_T254_M0.083790.752
45_A299_W0.083790.752
74_F249_L0.083730.752
173_L205_E0.083710.752
129_G140_A0.08370.752
81_A101_I0.083640.751
156_A292_A0.083610.751
116_K120_L0.083530.750
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
1zcdA0.888699.50.713
3zuxA0.758297.50.868
1zcdA0.470184.90.925
2nwlA0.817931.60.948
2k3cA0.089714.20.955
2l0eA0.089712.80.956
2zz9A0.28840.964
3gd8A0.252.40.968
3nd0A0.54892.10.969
1j4nA0.27991.90.97
If you are interested in a protein containing this domain,
drop us a note and we'll try to predict the structure for you.

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