GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Mg_trans_NIPA - Magnesium transporter NIPA
Pfam: PF05653 (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: CL0184
Length: 300
Sequences: 16091
Seq/Len: 53.64
HH_delta: 0.749 (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
11_L232_K1.194743.075
232_K236_R1.109892.856
70_A150_I1.073452.763
258_G264_E1.062592.735
109_G286_G0.996132.564
12_A233_A0.932472.400
66_L152_V0.906772.334
232_K235_K0.888632.287
26_Q68_F0.886542.282
80_A254_S0.882812.272
20_A257_G0.838352.158
27_K264_E0.802882.066
94_A100_E0.791642.037
20_A253_S0.788532.029
103_T106_D0.771341.985
89_F154_V0.752261.936
85_L89_F0.747251.923
95_R102_L0.745061.917
100_E165_P0.714831.840
94_A98_L0.703221.810
91_A110_C0.701831.806
90_N243_V0.700541.803
93_L162_F0.681541.754
69_V73_F0.664211.709
238_D241_L0.661561.703
76_A258_G0.659311.697
78_L135_E0.649381.671
209_Y212_T0.648781.670
62_L156_I0.633391.630
104_R108_V0.632941.629
74_A78_L0.622371.602
219_L224_V0.614471.581
111_A115_L0.606661.561
27_K31_L0.603671.554
49_R52_L0.60061.546
11_L229_Y0.595931.534
15_S233_A0.5881.513
17_I253_S0.584671.505
281_L285_I0.583281.501
69_V72_G0.577361.486
119_L269_T0.577131.485
186_T189_S0.577071.485
277_L281_L0.574491.479
158_I162_F0.572811.474
10_L14_V0.568481.463
109_G290_L0.568071.462
24_N257_G0.567351.460
75_P78_L0.561991.446
267_R276_F0.558491.437
116_G283_I0.55791.436
107_I111_A0.555641.430
132_T135_E0.5531.423
89_F155_L0.548911.413
257_G261_F0.544721.402
210_P214_L0.541131.393
18_F229_Y0.54071.392
15_S229_Y0.534451.375
21_V257_G0.534271.375
15_S19_I0.532051.369
67_N71_L0.522571.345
71_L79_V0.522421.345
181_L185_F0.519611.337
90_N239_T0.515451.327
93_L159_L0.509391.311
269_T276_F0.509011.310
211_L214_L0.507071.305
93_L97_F0.507061.305
109_G289_L0.505251.300
77_S255_I0.503161.295
66_L156_I0.502891.294
18_F221_V0.496271.277
76_A262_F0.492631.268
104_R107_I0.492231.267
70_A79_V0.491331.264
74_A79_V0.491321.264
19_I226_Q0.489241.259
157_L161_F0.485181.249
8_G236_R0.485071.248
34_P37_S0.484271.246
268_M278_C0.47921.233
96_F99_G0.478261.231
95_R101_K0.476951.227
253_S257_G0.475711.224
88_V113_I0.47491.222
259_A266_S0.471241.213
237_F242_V0.470521.211
102_L107_I0.469651.209
89_F158_I0.467851.204
85_L117_S0.465651.198
93_L96_F0.465621.198
32_R212_T0.463641.193
51_P54_W0.463181.192
116_G279_G0.457031.176
154_V158_I0.45631.174
100_E106_D0.455531.172
43_G46_S0.450771.160
280_F284_I0.450071.158
119_L282_I0.447831.153
50_R53_W0.445071.145
81_P118_V0.444371.144
33_L212_T0.442431.139
164_K231_N0.441991.138
92_V110_C0.441381.136
76_A264_E0.439481.131
82_L150_I0.439161.130
79_V150_I0.438631.129
16_S20_A0.43791.127
278_C282_I0.436041.122
100_E240_S0.435541.121
25_L218_V0.434121.117
24_N261_F0.429751.106
185_F188_L0.427861.101
234_L238_D0.426261.097
91_A102_L0.425641.095
155_L159_L0.420621.083
234_L242_V0.416121.071
208_T212_T0.415621.070
256_I260_I0.413911.065
103_T107_I0.412911.063
74_A77_S0.40791.050
168_G171_N0.406421.046
185_F189_S0.406011.045
26_Q71_L0.404611.041
19_I230_L0.40461.041
82_L154_V0.398471.026
62_L66_L0.39811.025
266_S277_L0.3931.011
153_L158_I0.392121.009
115_L119_L0.391111.007
258_G262_F0.390011.004
287_V290_L0.389641.003
238_D242_V0.385370.992
237_F241_L0.385310.992
90_N161_F0.384910.991
93_L158_I0.381440.982
14_V229_Y0.380450.979
214_L217_L0.380110.978
210_P213_Y0.378980.975
93_L155_L0.378770.975
224_V228_Y0.376760.970
56_G59_L0.376580.969
32_R209_Y0.3760.968
29_S212_T0.375670.967
220_V225_L0.375510.966
28_K215_L0.375050.965
42_S45_R0.374410.964
90_N162_F0.369820.952
221_V225_L0.369480.951
150_I154_V0.368420.948
50_R54_W0.368090.947
278_C281_L0.365320.940
9_V237_F0.364330.938
25_L217_L0.364240.937
24_N258_G0.363680.936
13_V16_S0.360380.927
159_L163_I0.358890.924
90_N94_A0.358770.923
9_V241_L0.358550.923
117_S121_V0.357710.921
180_S183_G0.35450.912
36_G65_I0.349970.901
112_L286_G0.349660.900
183_G187_V0.348050.896
276_F280_F0.347480.894
42_S46_S0.347390.894
209_Y213_Y0.346550.892
81_P121_V0.346370.891
115_L282_I0.345810.890
101_K105_R0.345790.890
255_I259_A0.345270.889
8_G233_A0.344390.886
23_F67_N0.341910.880
8_G237_F0.341780.880
60_M227_L0.339150.873
45_R49_R0.338880.872
98_L162_F0.338690.872
220_V224_V0.336670.866
24_N254_S0.336030.865
161_F243_V0.335120.862
74_A135_E0.33320.858
21_V217_L0.332960.857
157_L230_L0.331520.853
113_I286_G0.331060.852
116_G286_G0.330920.852
70_A74_A0.330740.851
105_R289_L0.330110.850
259_A265_F0.328810.846
25_L215_L0.328110.844
229_Y232_K0.327950.844
120_I279_G0.327340.842
233_A242_V0.327280.842
59_L159_L0.327250.842
228_Y232_K0.325940.839
215_L218_V0.323690.833
26_Q30_H0.323460.832
175_Y179_C0.323420.832
20_A254_S0.321430.827
12_A237_F0.320740.825
277_L280_F0.320320.824
30_H71_L0.319460.822
90_N158_I0.319210.822
225_L229_Y0.31810.819
124_A267_R0.317350.817
29_S215_L0.317270.817
53_W56_G0.316990.816
81_P280_F0.315530.812
160_I231_N0.314650.810
28_K32_R0.314310.809
184_S187_V0.31350.807
65_I69_V0.312460.804
67_N79_V0.312080.803
266_S276_F0.311330.801
47_Y52_L0.311310.801
256_I259_A0.310180.798
102_L106_D0.309910.798
85_L113_I0.309210.796
174_V178_I0.309030.795
255_I280_F0.308340.794
60_M64_E0.306690.789
80_A84_A0.305730.787
164_K234_L0.305530.786
230_L234_L0.304350.783
121_V125_P0.303990.782
22_G68_F0.303210.780
223_A226_Q0.301470.776
84_A117_S0.29970.771
30_H72_G0.299310.770
88_V110_C0.299120.770
257_G260_I0.298690.769
84_A87_L0.298240.768
60_M63_G0.298170.767
63_G83_G0.298080.767
18_F222_T0.297510.766
48_L51_P0.297080.765
91_A95_R0.296790.764
92_V96_F0.295930.762
63_G156_I0.295540.761
66_L153_L0.295160.760
82_L151_L0.294630.758
268_M277_L0.293910.756
18_F225_L0.29320.755
153_L157_L0.29230.752
112_L285_I0.292070.752
213_Y217_L0.29120.749
173_L177_S0.291090.749
22_G222_T0.290590.748
21_V24_N0.290370.747
97_F159_L0.290290.747
252_L280_F0.289750.746
115_L118_V0.28910.744
172_I175_Y0.285150.734
49_R53_W0.285130.734
109_G113_I0.28430.732
46_S50_R0.284250.732
91_A106_D0.284070.731
95_R99_G0.284010.731
105_R108_V0.283740.730
16_S253_S0.282880.728
150_I153_L0.282290.727
27_K262_F0.28220.726
12_A15_S0.28140.724
47_Y51_P0.280440.722
46_S49_R0.280090.721
113_I248_V0.279860.720
76_A80_A0.27950.719
173_L231_N0.27930.719
88_V114_I0.277230.713
48_L52_L0.276530.712
233_A237_F0.276510.712
43_G47_Y0.276390.711
106_D238_D0.275040.708
152_V156_I0.274590.707
214_L218_V0.274180.706
45_R48_L0.27410.705
77_S259_A0.273690.704
105_R288_F0.273480.704
177_S180_S0.272410.701
182_I186_T0.272060.700
250_F253_S0.271970.700
24_N262_F0.271640.699
165_P238_D0.271350.698
131_H135_E0.270370.696
23_F80_A0.270220.695
73_F133_L0.270120.695
174_V177_S0.269120.693
23_F84_A0.268720.692
39_R223_A0.26830.691
12_A242_V0.268160.690
101_K104_R0.268050.690
81_P120_I0.267970.690
11_L14_V0.267870.689
108_V112_L0.267380.688
60_M160_I0.267070.687
70_A73_F0.267030.687
285_I289_L0.266980.687
83_G230_L0.266630.686
278_C285_I0.265520.683
24_N76_A0.264530.681
183_G186_T0.26340.678
94_A97_F0.263160.677
175_Y178_I0.261550.673
27_K76_A0.261310.673
66_L69_V0.260850.671
11_L236_R0.259890.669
208_T213_Y0.259130.667
92_V95_R0.259030.667
129_P133_L0.258140.664
249_F252_L0.257470.663
18_F226_Q0.25720.662
233_A236_R0.256210.659
100_E239_T0.255930.659
106_D110_C0.25580.658
182_I185_F0.25560.658
89_F93_L0.254720.656
31_L34_P0.254570.655
23_F83_G0.253230.652
63_G67_N0.253030.651
119_L278_C0.252250.649
62_L152_V0.252190.649
173_L176_I0.252050.649
68_F72_G0.250610.645
52_L55_I0.250190.644
84_A154_V0.248980.641
24_N27_K0.248910.641
248_V251_T0.248910.641
181_L184_S0.248230.639
255_I258_G0.248120.639
11_L15_S0.247930.638
119_L279_G0.247340.637
176_I180_S0.246170.634
265_F268_M0.24590.633
28_K31_L0.245680.632
28_K262_F0.245430.632
17_I20_A0.244760.630
150_I157_L0.244010.628
67_N83_G0.243660.627
152_V155_L0.243160.626
255_I266_S0.242660.625
246_Y250_F0.242310.624
114_I118_V0.241670.622
153_L156_I0.241290.621
82_L117_S0.24080.620
284_I288_F0.240480.619
217_L220_V0.240060.618
160_I164_K0.240050.618
54_W58_L0.239670.617
20_A80_A0.239170.616
112_L289_L0.238940.615
212_T215_L0.238860.615
44_G49_R0.238680.614
61_V65_I0.237490.611
205_N208_T0.237280.611
151_L154_V0.236640.609
154_V157_L0.236570.609
129_P132_T0.236390.608
85_L88_V0.235960.607
51_P55_I0.233990.602
48_L53_W0.233280.600
28_K261_F0.233030.600
207_F210_P0.232670.599
287_V291_S0.232660.599
22_G26_Q0.232290.598
94_A240_S0.231340.595
82_L85_L0.230740.594
63_G160_I0.230530.593
282_I286_G0.23040.593
59_L156_I0.230230.593
21_V25_L0.229770.591
19_I63_G0.229230.590
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
3b5dA0.363398.70.749
2i68A0.453398.60.758
2i68A0.3798.50.769
3b5dA0.366798.20.794
4he8J0.5446.90.926
2gfpA0.587.70.948
1pw4A0.90676.50.95
3dh4A0.68675.40.952
2wswA0.336750.952
3rkoJ0.54333.90.954
If you are interested in a protein containing this domain,
drop us a note and we'll try to predict the structure for you.

Page generated in 0.0284 seconds.