GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Na_H_antiporter - NaH antiporter family
Pfam: PF03553 (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: CL0182
Length: 303
Sequences: 2304
Seq/Len: 7.6
HH_delta: 0.821 (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
49_L286_Y0.456964.448
140_G150_D0.331743.229
44_F48_I0.306552.984
255_D261_S0.219542.137
234_E240_P0.218352.125
175_G179_K0.216372.106
22_T247_I0.213632.079
184_D188_N0.209512.039
37_K41_P0.205722.002
122_D125_D0.187191.822
209_I253_F0.175121.705
51_L55_L0.175061.704
178_E227_P0.173931.693
8_S36_F0.170921.664
155_R158_K0.170761.662
208_S225_M0.17061.661
268_S278_H0.170321.658
45_I49_L0.169371.649
205_F250_G0.166921.625
212_S254_G0.166731.623
189_K192_K0.160841.566
207_L229_F0.160571.563
196_S199_S0.158331.541
41_P44_F0.158091.539
48_I52_I0.157871.537
266_L270_T0.157191.530
148_E151_G0.155691.515
161_L165_I0.155191.511
211_I215_T0.154571.504
204_T233_A0.152821.487
230_K234_E0.15181.478
38_T249_S0.150451.464
245_G249_S0.149841.458
67_K71_A0.148391.444
278_H282_T0.146851.429
9_S12_S0.146581.427
238_I242_L0.143441.396
14_T222_I0.142591.388
213_F253_F0.142091.383
201_P242_L0.13981.361
37_K40_I0.139181.355
128_F133_A0.138571.349
114_I118_F0.135161.316
213_F258_S0.134641.311
208_S251_A0.134451.309
209_I254_G0.132451.289
66_M156_G0.13171.282
258_S261_S0.13071.272
87_I210_I0.130691.272
18_A222_I0.130641.272
268_S275_G0.129731.263
198_R202_A0.129161.257
24_V28_D0.128681.252
255_D262_D0.127921.245
178_E184_D0.127871.245
41_P160_M0.127771.244
64_G67_K0.127231.238
279_V282_T0.126961.236
47_I51_L0.126941.236
168_I220_G0.126491.231
261_S265_I0.125921.226
217_S221_T0.125441.221
204_T229_F0.12421.209
283_P286_Y0.123651.204
167_L263_T0.12361.203
91_I95_L0.123571.203
80_V137_I0.122661.194
13_D17_L0.122311.190
175_G178_E0.122191.189
82_L115_A0.121481.182
139_T150_D0.121291.181
89_V170_A0.121141.179
248_E252_T0.120961.177
233_A243_L0.119261.161
255_D263_T0.118561.154
136_I140_G0.117981.148
194_I203_V0.116831.137
217_S262_D0.116581.135
112_I149_V0.116271.132
71_A75_N0.115841.128
72_R75_N0.115821.127
217_S255_D0.115591.125
19_A23_G0.115291.122
216_G255_D0.114881.118
268_S279_V0.113881.108
65_P73_A0.113621.106
217_S220_G0.113121.101
69_A277_S0.112881.099
25_D28_D0.112561.096
158_K161_L0.112171.092
276_V280_R0.111951.090
246_A250_G0.111281.083
12_S15_T0.110541.076
216_G258_S0.110511.076
46_S50_Y0.10951.066
28_D241_P0.109031.061
137_I140_G0.108291.054
49_L52_I0.10821.053
218_S255_D0.1081.051
49_L53_L0.107691.048
98_P102_A0.107111.043
216_G262_D0.106411.036
75_N79_W0.106111.033
14_T226_G0.106111.033
38_T245_G0.105641.028
247_I263_T0.104781.020
186_L228_I0.104731.019
228_I262_D0.104521.017
126_A130_G0.104471.017
53_L286_Y0.104331.015
50_Y54_G0.103931.012
60_S68_S0.103891.011
190_L203_V0.103591.008
226_G247_I0.103581.008
223_A237_G0.103571.008
66_M69_A0.103541.008
152_L155_R0.103371.006
21_V226_G0.102931.002
19_A24_V0.102520.998
88_V91_I0.102430.997
160_M164_I0.102320.996
210_I214_A0.10220.995
250_G256_P0.102140.994
11_L14_T0.102110.994
11_L15_T0.10190.992
80_V118_F0.101860.991
39_S248_E0.101830.991
19_A22_T0.101640.989
176_I180_T0.101640.989
188_N191_L0.101590.989
212_S255_D0.101320.986
224_I270_T0.100610.979
98_P101_P0.100530.978
43_N46_S0.100180.975
213_F254_G0.099920.973
97_M101_P0.099890.972
24_V240_P0.099830.972
212_S221_T0.099760.971
213_F261_S0.09950.968
195_K199_S0.099430.968
78_P81_L0.099420.968
150_D153_L0.099060.964
278_H283_P0.09890.963
88_V92_L0.098670.960
115_A121_I0.098530.959
218_S263_T0.098160.955
163_T219_W0.097860.953
171_G219_W0.097550.949
255_D264_T0.097260.947
136_I139_T0.097250.947
45_I48_I0.097030.944
77_S80_V0.09680.942
72_R196_S0.096750.942
163_T263_T0.096460.939
69_A72_R0.09640.938
256_P263_T0.096340.938
48_I51_L0.096320.938
170_A285_P0.096130.936
168_I260_W0.096130.936
222_I226_G0.096090.935
19_A29_H0.095910.934
268_S277_S0.095680.931
214_A250_G0.095660.931
76_L79_W0.095570.930
40_I44_F0.0950.925
65_P68_S0.094740.922
103_L186_L0.094390.919
215_T258_S0.09430.918
173_L228_I0.094210.917
211_I245_G0.094060.916
157_I161_L0.093930.914
60_S63_I0.093880.914
88_V137_I0.093680.912
137_I141_L0.093620.911
216_G220_G0.09340.909
131_I180_T0.093280.908
87_I148_E0.093080.906
16_N225_M0.093050.906
118_F121_I0.092980.905
58_G190_L0.092810.903
138_A141_L0.092530.901
81_L93_A0.092460.900
185_A189_K0.092360.899
15_T35_M0.092310.898
231_P280_R0.092210.898
254_G261_S0.092160.897
65_P87_I0.091840.894
120_G157_I0.091820.894
90_I94_L0.091440.890
157_I164_I0.091440.890
56_V63_I0.091420.890
61_P69_A0.091380.889
256_P267_S0.091190.888
13_D16_N0.091170.887
215_T261_S0.090760.883
212_S218_S0.090560.881
188_N192_K0.090460.880
154_I166_I0.090440.880
282_T285_P0.090360.880
125_D128_F0.090220.878
258_S262_D0.090160.878
270_T277_S0.089910.875
9_S14_T0.089830.874
64_G68_S0.089610.872
123_F187_V0.089570.872
139_T149_V0.089450.871
275_G278_H0.089380.870
282_T286_Y0.089360.870
119_Q233_A0.089160.868
80_V149_V0.089110.867
77_S81_L0.089030.867
47_I92_L0.088810.864
208_S250_G0.088780.864
54_G58_G0.088770.864
70_E76_L0.088770.864
212_S261_S0.088660.863
187_V215_T0.088450.861
167_L247_I0.088440.861
202_A206_L0.088380.860
177_L247_I0.08830.859
10_P283_P0.088260.859
148_E152_L0.088040.857
217_S265_I0.088020.857
23_G234_E0.087990.856
207_L228_I0.087520.852
78_P87_I0.08750.852
29_H241_P0.087440.851
214_A232_L0.087240.849
135_F154_I0.087090.848
255_D258_S0.086940.846
65_P235_K0.086720.844
10_P224_I0.086690.844
217_S263_T0.086630.843
200_L243_L0.086440.841
278_H285_P0.086370.841
229_F247_I0.086290.840
25_D258_S0.086270.840
86_I160_M0.086050.838
228_I246_A0.08560.833
81_L90_I0.085580.833
29_H248_E0.085510.832
51_L95_L0.085250.830
161_L164_I0.085230.830
39_S244_A0.08520.829
72_R91_I0.085170.829
76_L80_V0.085150.829
212_S258_S0.085130.829
135_F153_L0.085020.828
201_P246_A0.084820.826
132_L158_K0.084820.826
71_A87_I0.084780.825
121_I126_A0.084690.824
24_V29_H0.084490.822
261_S285_P0.084070.818
181_G184_D0.084070.818
20_S223_A0.083890.817
9_S271_L0.083610.814
8_S14_T0.083590.814
150_D154_I0.083520.813
61_P206_L0.083430.812
15_T18_A0.083360.811
164_I173_L0.083270.811
75_N78_P0.08320.810
215_T268_S0.082920.807
92_L95_L0.082840.806
215_T220_G0.082790.806
222_I263_T0.082790.806
191_L235_K0.082760.806
18_A29_H0.082450.803
221_T225_M0.08240.802
136_I141_L0.082320.801
227_P261_S0.082280.801
189_K193_K0.082260.801
53_L240_P0.082230.800
257_L284_F0.082210.800
53_L56_V0.082180.800
183_L187_V0.081840.797
180_T215_T0.081820.796
257_L268_S0.081780.796
135_F229_F0.081780.796
166_I262_D0.081730.796
202_A205_F0.081680.795
17_L261_S0.081560.794
220_G262_D0.081550.794
245_G248_E0.081380.792
158_K162_P0.081380.792
55_L190_L0.081380.792
235_K257_L0.081340.792
171_G263_T0.08120.790
204_T243_L0.081170.790
165_I169_L0.080910.788
68_S192_K0.080890.787
27_Y30_I0.080870.787
127_L270_T0.080850.787
267_S285_P0.08080.786
189_K279_V0.08070.785
13_D18_A0.080280.781
215_T267_S0.080180.780
152_L180_T0.079890.778
174_G223_A0.079720.776
246_A249_S0.079690.776
30_I248_E0.079350.772
50_Y286_Y0.079350.772
124_A128_F0.079330.772
35_M257_L0.079320.772
58_G130_G0.079280.772
191_L194_I0.079220.771
39_S252_T0.079190.771
22_T244_A0.079180.771
128_F181_G0.079180.771
39_S245_G0.079170.771
60_S133_A0.079170.771
211_I262_D0.079130.770
186_L189_K0.078970.769
70_E73_A0.07880.767
219_W222_I0.078710.766
29_H35_M0.078690.766
258_S285_P0.078450.764
176_I179_K0.078270.762
93_A164_I0.078250.762
271_L276_V0.078230.761
85_P89_V0.078220.761
264_T285_P0.078210.761
87_I113_I0.078190.761
180_T187_V0.078020.759
228_I286_Y0.077950.759
69_A73_A0.077880.758
44_F173_L0.077740.757
217_S267_S0.07770.756
15_T252_T0.077660.756
255_D259_P0.077560.755
26_L30_I0.077440.754
166_I179_K0.077270.752
231_P236_M0.077230.752
94_L154_I0.077150.751
52_I148_E0.077120.751
68_S71_A0.077110.751
174_G212_S0.077110.751
165_I168_I0.076890.748
71_A78_P0.07680.748
233_A253_F0.076710.747
208_S247_I0.076580.745
212_S256_P0.076560.745
167_L261_S0.076510.745
42_A46_S0.076420.744
35_M244_A0.076380.743
95_L203_V0.076370.743
56_V97_M0.076340.743
161_L169_L0.076240.742
58_G87_I0.076150.741
62_D66_M0.076130.741
218_S262_D0.075980.740
265_I270_T0.075970.739
277_S282_T0.075950.739
82_L95_L0.075920.739
52_I72_R0.075910.739
264_T278_H0.07590.739
133_A137_I0.075850.738
58_G140_G0.07580.738
18_A162_P0.07580.738
151_G192_K0.075720.737
78_P85_P0.075680.737
172_A209_I0.075520.735
62_D69_A0.075470.735
15_T177_L0.075440.734
167_L220_G0.075430.734
78_P148_E0.075210.732
171_G266_L0.075170.732
95_L98_P0.075070.731
186_L190_L0.075020.730
35_M248_E0.074980.730
91_I125_D0.07490.729
14_T248_E0.074860.729
219_W255_D0.07480.728
211_I246_A0.07480.728
51_L91_I0.074770.728
188_N195_K0.074750.728
99_V102_A0.074710.727
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
4f35D0.877998.50.821
4f35D0.6964980.848
4dglA0.1989.30.958
2gfpA0.28382.60.967
3qnqA0.23432.40.968
2ptmA0.19810.974
2kluA0.08580.90.974
2h3oA0.08250.80.975
3iz5C0.1980.70.976
2lkqA0.0330.70.976
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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