GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Fungal_trans_2 - Fungal specific transcription factor domain
Pfam: PF11951 (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: CL0507
Length: 383
Sequences: 2457
Seq/Len: 6.42
HH_delta: 0.952 (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
40_H65_H0.358284.770
115_H118_G0.342234.557
332_L354_E0.313694.177
275_R321_E0.252973.368
319_G353_L0.24713.290
200_E232_R0.217712.899
263_E266_R0.216982.889
4_D8_N0.185912.475
5_H49_H0.185032.464
90_D126_R0.183452.443
151_D155_S0.182612.431
355_E358_R0.181072.411
299_E330_W0.17532.334
319_G331_I0.170362.268
267_H290_L0.148341.975
292_S327_Q0.147991.970
294_I318_A0.145881.942
70_L115_H0.143881.916
332_L350_R0.135591.805
339_Q350_R0.132681.767
194_L236_W0.131051.745
103_E115_H0.129311.722
96_V115_H0.128421.710
336_R354_E0.127471.697
350_R354_E0.127071.692
39_L43_L0.126881.689
32_A39_L0.12191.623
40_H68_Q0.118481.577
291_V294_I0.116691.554
68_Q71_R0.11631.548
67_S70_L0.115891.543
18_D25_R0.115091.532
47_A62_A0.114971.531
5_H46_S0.114441.524
32_A42_I0.114191.520
207_R225_R0.112781.502
90_D137_S0.112721.501
265_Y314_P0.112441.497
197_L201_I0.111741.488
313_W317_I0.111181.480
268_A313_W0.110741.474
295_L298_L0.110081.466
293_R296_E0.109451.457
7_I29_L0.109161.453
94_A143_L0.109141.453
230_E234_R0.108881.450
11_S24_W0.108611.446
6_F42_I0.108111.439
156_T313_W0.107451.431
37_A95_A0.106831.422
330_W334_R0.106731.421
3_L10_V0.10671.421
294_I298_L0.10661.419
38_L41_A0.106491.418
43_L65_H0.103051.372
272_Y313_W0.102531.365
70_L74_R0.10251.365
5_H9_H0.098291.309
204_L229_L0.097141.293
44_A66_Y0.096451.284
48_S102_F0.095831.276
146_W150_L0.094331.256
315_L331_I0.094331.256
51_A62_A0.094181.254
18_D24_W0.094151.254
71_R75_R0.093971.251
11_S22_N0.093761.248
35_S91_S0.093621.246
6_F11_S0.093141.240
263_E267_H0.092631.233
96_V118_G0.09231.229
314_P318_A0.091851.223
77_L118_G0.091791.222
44_A102_F0.091731.221
320_C353_L0.091731.221
318_A331_I0.091551.219
350_R353_L0.091341.216
63_L67_S0.090731.208
62_A102_F0.09051.205
112_W154_A0.090431.204
329_D332_L0.090371.203
43_L47_A0.090321.203
228_E232_R0.090121.200
266_R270_L0.089931.197
272_Y317_I0.089871.197
264_A297_I0.089481.191
8_N11_S0.089471.191
312_L335_L0.089351.190
66_Y103_E0.089081.186
348_R351_E0.088931.184
77_L115_H0.088921.184
119_A147_F0.088871.183
31_L94_A0.088761.182
123_I128_G0.088751.182
315_L319_G0.088311.176
11_S25_R0.088021.172
224_S228_E0.08791.170
333_A337_R0.086941.158
38_L94_A0.086711.154
70_L118_G0.086631.153
44_A62_A0.085451.138
260_H297_I0.085211.135
268_A272_Y0.085061.133
120_R151_D0.084481.125
325_P329_D0.084411.124
37_A72_S0.084251.122
336_R350_R0.083811.116
200_E225_R0.083231.108
11_S18_D0.082821.103
65_H68_Q0.082741.102
247_S251_S0.082681.101
92_T96_V0.08261.100
322_A331_I0.082551.099
60_R229_L0.082461.098
45_L98_L0.082361.097
230_E270_L0.081921.091
274_Y286_E0.081721.088
66_Y102_F0.081661.087
5_H50_L0.081471.085
49_H342_G0.08121.081
41_A99_L0.081081.080
197_L233_L0.081041.079
45_L313_W0.081011.079
37_A40_H0.080841.076
4_D11_S0.080381.070
101_L107_G0.080381.070
290_L294_I0.080351.070
151_D318_A0.080341.070
7_I11_S0.080291.069
97_L119_A0.080131.067
107_G309_R0.079981.065
272_Y276_V0.079931.064
285_P291_V0.079871.063
3_L39_L0.079681.061
36_P39_L0.079641.060
74_R78_S0.079641.060
354_E358_R0.079561.059
11_S15_S0.078921.051
191_P194_L0.078731.048
115_H122_L0.078681.048
69_A95_A0.078671.047
10_V14_L0.078631.047
22_N25_R0.078221.041
137_S141_R0.078221.041
73_L156_T0.078091.040
18_D22_N0.077751.035
9_H12_P0.07771.035
61_E64_R0.077631.034
221_E224_S0.077541.032
289_E293_R0.077161.027
170_S173_F0.076781.022
15_S24_W0.076651.021
154_A158_S0.076571.019
284_S287_I0.076321.016
287_I291_V0.076291.016
112_W319_G0.076281.016
16_P24_W0.076261.015
123_I127_G0.076081.013
339_Q347_R0.076031.012
43_L46_S0.075751.009
93_L119_A0.075421.004
264_A294_I0.074890.997
230_E274_Y0.074650.994
31_L38_L0.074610.993
297_I300_S0.074260.989
336_R351_E0.074020.986
38_L164_L0.073730.982
201_I269_A0.073490.978
262_A266_R0.073430.978
121_S125_S0.073390.977
241_P246_S0.073160.974
331_I353_L0.073130.974
96_V126_R0.0730.972
149_Y320_C0.072970.972
208_K279_S0.072840.970
37_A69_A0.072820.970
45_L105_L0.072820.970
61_E65_H0.072630.967
164_L224_S0.072330.963
27_V32_A0.072270.962
66_Y236_W0.072030.959
290_L293_R0.071840.956
103_E191_P0.071820.956
24_W48_S0.071780.956
329_D333_A0.071780.956
12_P22_N0.071740.955
74_R77_L0.071560.953
189_G357_W0.070750.942
205_A276_V0.070490.939
79_D82_S0.070360.937
291_V295_L0.070320.936
208_K222_L0.070250.935
96_V119_A0.070120.934
33_L39_L0.069830.930
99_L330_W0.069690.928
231_Q235_S0.069590.927
6_F9_H0.06940.924
352_L356_V0.069380.924
226_A277_I0.069250.922
164_L168_E0.069070.920
146_W149_Y0.068990.919
64_R122_L0.068840.917
220_L224_S0.068790.916
264_A318_A0.068790.916
328_R332_L0.068790.916
41_A69_A0.068640.914
346_V350_R0.068630.914
10_V24_W0.068590.913
40_H46_S0.068570.913
32_A35_S0.068130.907
37_A41_A0.06810.907
201_I229_L0.068060.906
330_W357_W0.068060.906
126_R140_L0.068020.906
223_L227_Q0.068010.906
7_I25_R0.06790.904
32_A146_W0.067690.901
96_V99_L0.067620.900
103_E276_V0.067580.900
249_S253_S0.067420.898
76_A92_T0.06720.895
198_I312_L0.067190.895
36_P72_S0.067120.894
15_S23_P0.06690.891
24_W29_L0.06680.889
268_A317_I0.066540.886
85_S126_R0.066410.884
304_S308_S0.066270.882
17_F25_R0.0660.879
322_A327_Q0.065920.878
49_H266_R0.06590.877
69_A99_L0.065440.871
248_P253_S0.065420.871
47_A73_L0.065290.869
174_D333_A0.065240.869
15_S18_D0.065220.868
104_I112_W0.065210.868
17_F30_P0.065180.868
295_L331_I0.065050.866
270_L281_P0.065020.866
105_L112_W0.0650.865
64_R68_Q0.064990.865
90_D140_L0.064980.865
198_I313_W0.064910.864
6_F96_V0.064820.863
192_N196_Q0.06480.863
145_E155_S0.064640.861
204_L226_A0.06460.860
201_I276_V0.064540.859
116_L151_D0.064530.859
11_S107_G0.064480.859
3_L29_L0.064410.858
28_L31_L0.06440.857
201_I273_L0.064370.857
91_S95_A0.064330.857
3_L43_L0.064280.856
72_S76_A0.064240.855
126_R313_W0.064210.855
46_S339_Q0.064110.854
142_F147_F0.064070.853
47_A51_A0.063990.852
150_L233_L0.063940.851
95_A99_L0.063920.851
240_L243_W0.06390.851
284_S291_V0.063860.850
11_S32_A0.063760.849
19_S25_R0.063750.849
267_H270_L0.063680.848
231_Q234_R0.063670.848
340_S345_N0.063660.848
237_R241_P0.063590.847
10_V49_H0.063490.845
102_F294_I0.063490.845
116_L154_A0.063180.841
9_H13_I0.063120.840
67_S74_R0.063060.840
269_A275_R0.062890.837
222_L226_A0.062870.837
353_L357_W0.062650.834
113_R117_R0.062630.834
269_A314_P0.062520.832
10_V13_I0.062260.829
301_L305_S0.062250.829
189_G198_I0.062240.829
123_I147_F0.06210.827
185_D189_G0.061930.825
42_I310_C0.061890.824
28_L142_F0.061760.822
221_E235_S0.061760.822
260_H300_S0.061750.822
219_P229_L0.061540.819
28_L99_L0.061520.819
4_D7_I0.061460.818
14_L191_P0.061420.818
45_L146_W0.061350.817
226_A233_L0.06130.816
139_L143_L0.061220.815
116_L332_L0.06120.815
41_A97_L0.061170.814
145_E151_D0.061090.813
68_Q140_L0.060940.811
5_H10_V0.060910.811
334_R337_R0.060860.810
145_E149_Y0.060850.810
145_E294_I0.060760.809
33_L159_G0.060740.809
26_R30_P0.060690.808
42_I98_L0.060670.808
288_Q324_D0.060650.808
152_I307_A0.060620.807
28_L100_C0.060580.807
81_S92_T0.060520.806
265_Y280_L0.060480.805
308_S316_F0.060480.805
334_R338_L0.060480.805
117_R121_S0.060380.804
171_D174_D0.060380.804
40_H72_S0.060350.804
268_A276_V0.060340.803
103_E111_S0.06030.803
288_Q327_Q0.060050.800
110_S197_L0.060040.799
288_Q323_R0.059990.799
228_E231_Q0.059950.798
315_L334_R0.059910.798
110_S329_D0.059890.797
185_D274_Y0.059870.797
265_Y343_F0.059850.797
225_R228_E0.059820.796
327_Q341_S0.059790.796
167_S171_D0.059780.796
161_K210_Q0.059720.795
267_H275_R0.059710.795
269_A292_S0.059550.793
291_V318_A0.059440.791
100_C150_L0.059380.791
142_F149_Y0.059360.790
244_S253_S0.059360.790
112_W195_F0.059310.790
319_G357_W0.059220.788
6_F22_N0.059180.788
294_I331_I0.059160.788
108_D112_W0.059140.787
78_S286_E0.059080.787
11_S311_L0.0590.786
272_Y294_I0.058850.784
157_T160_S0.058720.782
186_P194_L0.058710.782
83_A213_Q0.058670.781
28_L320_C0.058650.781
56_P224_S0.058620.780
97_L206_A0.058570.780
195_F233_L0.058550.780
267_H297_I0.058520.779
150_L264_A0.05850.779
6_F85_S0.058490.779
151_D162_P0.058490.779
154_A288_Q0.058480.779
172_I175_S0.058480.779
285_P298_L0.058470.778
28_L38_L0.058460.778
37_A97_L0.058370.777
7_I32_A0.058320.776
16_P19_S0.058190.775
6_F10_V0.05810.774
112_W118_G0.058080.773
248_P300_S0.057970.772
295_L330_W0.057950.772
40_H115_H0.057930.771
248_P252_S0.057870.770
265_Y357_W0.057750.769
66_Y335_L0.057690.768
345_N348_R0.057610.767
158_S272_Y0.057560.766
341_S357_W0.057330.763
38_L154_A0.057280.763
10_V45_L0.057220.762
112_W313_W0.057130.761
59_S62_A0.057070.760
263_E270_L0.05690.758
186_P190_C0.056880.757
288_Q297_I0.056880.757
31_L338_L0.056830.757
184_L187_L0.056810.756
197_L273_L0.056790.756
82_S85_S0.056760.756
151_D199_S0.056760.756
170_S174_D0.056740.755
155_S162_P0.056640.754
265_Y276_V0.056590.753
191_P265_Y0.056580.753
63_L115_H0.056410.751
201_I264_A0.056410.751
315_L355_E0.05640.751
263_E293_R0.056360.750
184_L191_P0.056330.750
108_D155_S0.05630.750
282_P351_E0.056260.749
308_S311_L0.056250.749
66_Y70_L0.056230.749
128_G143_L0.05620.748
96_V102_F0.056180.748
194_L197_L0.056160.748
38_L139_L0.056140.747
75_R255_E0.056080.747
68_Q72_S0.056050.746
246_S255_E0.056040.746
124_Q231_Q0.056020.746
311_L314_P0.056010.746
4_D77_L0.055960.745
101_L146_W0.055950.745
48_S62_A0.055930.745
282_P310_C0.055910.744
187_L345_N0.055830.743
302_P334_R0.055820.743
119_A123_I0.055810.743
14_L101_L0.055790.743
142_F189_G0.055760.742
99_L103_E0.055750.742
70_L103_E0.055640.741
10_V46_S0.055580.740
333_A336_R0.055570.740
224_S283_S0.055520.739
76_A95_A0.055480.739
148_A151_D0.055460.738
97_L345_N0.055450.738
147_F158_S0.055410.738
224_S227_Q0.055410.738
14_L294_I0.05540.738
162_P168_E0.055350.737
269_A272_Y0.055310.736
268_A314_P0.05530.736
93_L313_W0.055290.736
240_L244_S0.055270.736
60_R64_R0.055260.736
92_T353_L0.055260.736
94_A316_F0.055260.736
221_E255_E0.054990.732
154_A316_F0.054970.732
198_I321_E0.054920.731
227_Q231_Q0.054880.731
73_L95_A0.054840.730
80_P169_W0.05480.730
38_L98_L0.054770.729
3_L16_P0.054720.729
47_A142_F0.054720.729
330_W333_A0.054710.728
114_S334_R0.05470.728
28_L42_I0.054660.728
6_F269_A0.054640.727
45_L310_C0.054630.727
225_R282_P0.054580.727
100_C112_W0.054570.727
324_D332_L0.054540.726
67_S102_F0.054450.725
90_D144_L0.054450.725
159_G169_W0.054390.724
153_L265_Y0.054340.723
247_S318_A0.054320.723
73_L114_S0.054280.723
3_L240_L0.054270.723
201_I233_L0.054270.723
16_P156_T0.054180.721
57_S285_P0.054180.721
261_I334_R0.054140.721
234_R245_P0.054120.721
29_L66_Y0.054080.720
24_W226_A0.054050.720
33_L38_L0.053990.719
292_S335_L0.053970.719
169_W173_F0.053930.718
19_S280_L0.053830.717
196_Q200_E0.053830.717
223_L226_A0.05380.716
22_N26_R0.053790.716
194_L233_L0.053790.716
241_P245_P0.053780.716
260_H301_L0.053740.716
253_S283_S0.053680.715
264_A334_R0.053650.714
114_S123_I0.053630.714
101_L353_L0.053590.714
235_S304_S0.053590.714
283_S291_V0.053530.713
66_Y148_A0.05350.712
227_Q230_E0.053480.712
36_P211_Q0.053460.712
142_F345_N0.053460.712
229_L232_R0.053450.712
247_S253_S0.053420.711
52_S98_L0.053320.710
3_L9_H0.053280.709
8_N93_L0.053260.709
84_S183_S0.053240.709
23_P349_A0.053230.709
63_L77_L0.05320.708
228_E291_V0.053190.708
70_L141_R0.053180.708
250_S253_S0.053170.708
7_I97_L0.053120.707
46_S335_L0.053110.707
152_I272_Y0.053110.707
166_L337_R0.053080.707
242_P245_P0.053050.706
15_S143_L0.053010.706
27_V139_L0.052990.706
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
2w6kA0.193220.60.952
3qwwA0.339412.90.956
3qwpA0.36299.60.959
1kwgA0.16718.60.959
1txnA0.17496.90.961
1vjuA0.18546.90.961
3by5A0.18026.30.962
1vemA0.20375.80.962
4epzA0.4235.80.962
1q8dA0.11755.30.963
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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