GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Na_H_antiport_1 - NaH antiporter 1
Pfam: PF06965 (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: 378
Sequences: 4567
Seq/Len: 12.08
HH_delta: 0.331 (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
101_M162_G0.362043.115
54_S57_H0.279852.408
301_P329_Y0.25052.156
126_M166_V0.247012.126
305_F332_G0.242782.089
164_I345_I0.227121.954
211_L229_L0.221231.904
108_Y350_F0.218941.884
108_Y115_G0.209611.804
293_I297_V0.205781.771
47_G50_H0.205721.770
28_S31_A0.203051.747
297_V301_P0.202571.743
127_A130_I0.201461.734
231_L234_P0.197191.697
177_L181_L0.195671.684
99_G102_L0.195321.681
41_P45_G0.194261.672
129_D336_G0.189431.630
298_V302_L0.189341.629
121_G126_M0.186721.607
25_W269_L0.182841.573
45_G50_H0.182761.573
305_F325_W0.182661.572
324_S327_H0.182441.570
43_G52_S0.181151.559
294_L298_V0.18111.558
191_F195_R0.180731.555
118_A121_G0.179871.548
106_L110_A0.177011.523
286_S290_L0.176981.523
212_W222_A0.173261.491
163_A341_M0.168411.449
85_S88_R0.167551.442
69_F208_G0.166381.432
312_V328_L0.166191.430
178_L182_L0.16611.429
287_P291_G0.161491.390
213_Y217_K0.160751.383
123_A126_M0.160141.378
109_L119_A0.161.377
187_L191_F0.15841.363
192_V196_L0.158391.363
296_L338_G0.157961.359
127_A163_A0.15711.352
185_A189_L0.156731.349
48_S51_L0.156621.348
207_L210_L0.156571.347
297_V329_Y0.155831.341
155_L339_F0.155381.337
219_G226_G0.155161.335
301_P305_F0.153891.324
301_P332_G0.153551.321
25_W28_S0.153291.319
188_L191_F0.153091.317
53_L57_H0.153091.317
130_I156_A0.152751.314
123_A166_V0.152091.309
41_P52_S0.150711.297
256_H260_A0.150211.293
304_I335_A0.148051.274
128_T159_D0.147861.272
99_G103_V0.147411.269
129_D337_I0.147251.267
290_L294_L0.146831.264
98_L102_L0.146341.259
176_S179_W0.145751.254
146_A149_R0.144811.246
206_L210_L0.14451.243
87_P90_A0.1441.239
124_I342_S0.143221.232
277_S280_S0.141911.221
191_F232_F0.141881.221
186_A207_L0.141291.216
135_G139_L0.141061.214
159_D303_G0.140941.213
334_L338_G0.138131.189
189_L207_L0.137851.186
129_D159_D0.137441.183
279_S282_G0.137291.181
155_L159_D0.136681.176
298_V301_P0.136661.176
341_M344_F0.136091.171
188_L192_V0.135481.166
21_L269_L0.135331.165
112_N291_G0.134951.161
128_T156_A0.13491.161
97_A100_G0.134611.158
326_R329_Y0.134451.157
184_A188_L0.134391.156
325_W329_Y0.134121.154
129_D335_A0.134031.153
56_H271_N0.133911.152
128_T152_L0.133721.151
295_G299_G0.13371.151
132_F135_G0.13341.148
323_V331_V0.132121.137
86_S154_A0.13211.137
215_V220_V0.131211.129
111_F292_I0.130881.126
69_F229_L0.130631.124
156_A159_D0.130251.121
209_I213_Y0.129691.116
259_V340_T0.129571.115
106_L109_L0.129481.114
69_F230_A0.129421.114
215_V225_A0.12941.114
179_W214_A0.129131.111
134_L153_L0.128631.107
159_D336_G0.128551.106
178_L181_L0.12821.103
44_L50_H0.127761.099
165_L169_L0.127751.099
283_D286_S0.127621.098
262_V265_P0.127531.097
272_A340_T0.126731.091
104_P303_G0.126621.090
105_A166_V0.125781.082
42_L322_G0.125771.082
282_G286_S0.124931.075
65_A212_W0.123921.066
186_A211_L0.123921.066
164_I221_H0.12391.066
24_I28_S0.123871.066
334_L337_I0.123151.060
101_M166_V0.122181.051
58_W62_G0.121951.049
28_S32_S0.12121.043
175_I178_L0.120731.039
26_A32_S0.120641.038
113_A119_A0.120311.035
154_A157_I0.119751.030
130_I300_K0.119581.029
154_A158_V0.119551.029
147_S327_H0.119431.028
104_P159_D0.11931.027
129_D155_L0.1191.024
137_L152_L0.118971.024
262_V266_L0.118831.023
193_L207_L0.118741.022
127_A159_D0.118411.019
22_A27_N0.118331.018
346_A349_A0.118181.017
189_L193_L0.117911.015
129_D156_A0.117771.013
216_L222_A0.117521.011
132_F223_T0.116781.005
161_L341_M0.116641.004
164_I168_A0.116361.001
78_E178_L0.116120.999
248_L252_E0.115920.998
24_I27_N0.115590.995
174_G294_L0.115560.994
305_F329_Y0.115460.994
76_K332_G0.115230.992
190_L211_L0.114550.986
68_F127_A0.114520.985
159_D163_A0.114080.982
221_H345_I0.113820.979
310_L314_L0.113410.976
186_A210_L0.113330.975
60_N271_N0.113070.973
159_D340_T0.112990.972
162_G169_L0.112950.972
157_I165_L0.11280.971
329_Y332_G0.11280.971
328_L332_G0.11280.971
75_I154_A0.112410.967
59_I270_A0.112330.967
75_I264_L0.112320.967
113_A321_D0.112120.965
291_G295_G0.112090.965
72_G230_A0.11150.959
264_L332_G0.111410.959
23_L26_A0.111270.958
147_S323_V0.110930.955
322_G325_W0.110740.953
155_L161_L0.110570.951
65_A209_I0.110520.951
304_I336_G0.109980.946
100_G104_P0.109880.946
163_A345_I0.109820.945
109_L114_G0.109690.944
130_I274_V0.109660.944
264_L267_F0.109580.943
55_L58_W0.109220.940
153_L227_V0.109160.939
102_L106_L0.10910.939
183_A186_A0.10840.933
77_R231_L0.108260.932
65_A222_A0.108230.931
167_I171_Y0.108170.931
98_L111_F0.107540.925
68_F131_A0.107360.924
288_V291_G0.107110.922
97_A158_V0.10680.919
124_I346_A0.106790.919
40_T43_G0.106670.918
44_L276_L0.106460.916
188_L324_S0.106380.915
60_N63_L0.106370.915
21_L25_W0.106260.914
129_D132_F0.106190.914
153_L230_A0.106150.913
211_L215_V0.1060.912
182_L214_A0.105920.911
105_A163_A0.105870.911
73_L230_A0.105550.908
125_P166_V0.105270.906
65_A68_F0.105130.905
191_F194_N0.105070.904
190_L229_L0.105070.904
232_F236_R0.104510.899
151_F253_H0.104370.898
312_V331_V0.104320.898
156_A221_H0.104270.897
324_S328_L0.104240.897
44_L278_G0.104220.897
72_G295_G0.104190.897
225_A238_R0.103980.895
44_L47_G0.103770.893
25_W41_P0.103650.892
194_N233_I0.103370.890
224_I228_L0.103330.889
107_I298_V0.103170.888
128_T335_A0.103110.887
250_R254_A0.103080.887
338_G342_S0.102870.885
25_W30_W0.102840.885
63_L67_F0.10260.883
62_G66_I0.102480.882
89_K146_A0.10240.881
45_G52_S0.102240.880
129_D340_T0.101840.876
220_V225_A0.101750.876
40_T322_G0.101640.875
205_L251_L0.101510.874
111_F114_G0.101440.873
174_G185_A0.101320.872
97_A132_F0.101220.871
110_A350_F0.10120.871
115_G118_A0.101180.871
75_I153_L0.101170.871
73_L219_G0.100910.868
155_L300_K0.10090.868
203_P230_A0.100820.868
228_L232_F0.100770.867
75_I274_V0.100550.865
107_I294_L0.100530.865
155_L163_A0.100290.863
133_A331_V0.100180.862
125_P339_F0.10010.861
151_F154_A0.099880.860
111_F294_L0.099880.860
255_L258_W0.099860.859
327_H331_V0.09970.858
109_L178_L0.099670.858
312_V323_V0.099490.856
62_G266_L0.099440.856
292_I303_G0.099280.854
76_K136_V0.099280.854
108_Y111_F0.099280.854
64_M341_M0.099120.853
221_H265_P0.098850.851
89_K347_G0.098760.850
97_A104_P0.098460.847
101_M107_I0.098340.846
63_L267_F0.098340.846
25_W251_L0.098050.844
153_L249_E0.097740.841
132_F335_A0.097660.840
325_W328_L0.097630.840
61_D221_H0.097570.840
288_V292_I0.09740.838
299_G303_G0.097330.838
67_F341_M0.097140.836
160_D163_A0.096980.835
184_A294_L0.096930.834
213_Y216_L0.096890.834
129_D221_H0.096390.829
46_F274_V0.096370.829
45_G48_S0.096370.829
25_W29_P0.096310.829
198_V202_W0.096170.828
109_L288_V0.09610.827
131_A163_A0.096010.826
146_A290_L0.0960.826
159_D223_T0.095880.825
112_N115_G0.095830.825
152_L334_L0.095790.824
77_R252_E0.095790.824
98_L116_P0.095720.824
274_V278_G0.095660.823
126_M154_A0.095630.823
129_D212_W0.095410.821
135_G343_L0.095340.820
164_I343_L0.095170.819
287_P290_L0.095160.819
251_L255_L0.095160.819
118_A213_Y0.095110.818
22_A272_A0.095090.818
192_V286_S0.095020.818
190_L194_N0.095010.818
323_V327_H0.094990.817
75_I130_I0.094990.817
105_A126_M0.094770.816
177_L214_A0.094610.814
185_A279_S0.094440.813
217_K329_Y0.094380.812
125_P130_I0.094190.811
126_M133_A0.093910.808
337_I340_T0.09390.808
44_L292_I0.093880.808
283_D287_P0.093830.807
63_L340_T0.093830.807
59_I271_N0.093810.807
149_R337_I0.09380.807
127_A339_F0.093790.807
74_E219_G0.093780.807
137_L269_L0.093730.807
65_A131_A0.093730.807
127_A156_A0.093720.806
68_F104_P0.093410.804
285_T326_R0.093290.803
102_L279_S0.093280.803
126_M338_G0.093240.802
69_F214_A0.093220.802
193_L203_P0.093080.801
40_T44_L0.0930.800
258_W262_V0.092950.800
88_R91_A0.092850.799
228_L264_L0.09280.799
54_S350_F0.09280.799
86_S89_K0.092730.798
221_H344_F0.09270.798
52_S213_Y0.092690.798
49_F277_S0.092350.795
282_G285_T0.092350.795
187_L232_F0.092330.795
127_A336_G0.092160.793
102_L166_V0.092150.793
121_G131_A0.091640.789
332_G345_I0.091630.789
64_M340_T0.091450.787
186_A228_L0.091440.787
86_S92_L0.091410.787
211_L214_A0.09140.787
53_L56_H0.091240.785
292_I324_S0.09120.785
286_S291_G0.091180.785
148_L331_V0.091050.784
53_L217_K0.091050.784
125_P128_T0.091010.783
128_T163_A0.090940.783
69_F154_A0.090930.782
69_F255_L0.090840.782
224_I336_G0.090790.781
111_F288_V0.090730.781
24_I41_P0.090720.781
22_A28_S0.090650.780
55_L121_G0.090650.780
21_L110_A0.090550.779
179_W334_L0.090530.779
156_A234_P0.090510.779
180_L218_S0.090470.779
183_A228_L0.090430.778
97_A102_L0.090430.778
192_V298_V0.090220.776
323_V328_L0.09020.776
133_A136_V0.090090.775
130_I337_I0.090080.775
21_L206_L0.090040.775
173_D176_S0.089990.774
72_G327_H0.089950.774
283_D310_L0.089920.774
58_W208_G0.089870.773
159_D339_F0.089840.773
340_T345_I0.089760.772
230_A330_G0.089740.772
182_L185_A0.089740.772
336_G339_F0.08970.772
181_L277_S0.089580.771
108_Y112_N0.089490.770
103_V106_L0.089470.770
226_G345_I0.089380.769
183_A215_V0.089350.769
44_L49_F0.089340.769
71_V134_L0.089290.768
164_I215_V0.089290.768
203_P251_L0.089230.768
327_H330_G0.089210.768
98_L162_G0.089040.766
182_L186_A0.088950.765
212_W226_G0.08890.765
279_S283_D0.088810.764
163_A337_I0.08880.764
224_I227_V0.088770.764
172_T175_I0.088690.763
70_V74_E0.088580.762
136_V255_L0.088580.762
167_I300_K0.088570.762
134_L167_I0.088430.761
129_D133_A0.088390.761
230_A323_V0.088380.761
98_L206_L0.088290.760
263_I267_F0.088270.760
24_I204_Y0.088210.759
132_F136_V0.088210.759
52_S55_L0.088070.758
106_L179_W0.08790.756
282_G302_L0.087820.756
161_L227_V0.087670.754
75_I158_V0.08750.753
103_V114_G0.087490.753
68_F339_F0.087470.753
127_A342_S0.087390.752
173_D189_L0.087390.752
105_A287_P0.087240.751
155_L222_A0.087220.751
155_L338_G0.087190.750
285_T298_V0.086970.748
45_G173_D0.086960.748
59_I263_I0.086910.748
156_A161_L0.086910.748
161_L165_L0.08690.748
181_L253_H0.086850.747
130_I267_F0.086680.746
45_G51_L0.086610.745
186_A190_L0.086550.745
45_G49_F0.086530.745
133_A152_L0.08650.744
98_L103_V0.086390.743
71_V208_G0.086380.743
87_P91_A0.086070.741
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
1zcdA0.98941000.331
3zuxA0.785796.70.908
2k3cA0.087392.40.93
2htgA0.074178.30.943
2l0eA0.087366.40.948
2m7xA0.076729.90.958
2wwbB0.10323.10.972
2kv5A0.0372.70.973
2ww9B0.09792.40.974
2kbvA0.07412.10.975

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