GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF3533 - Protein of unknown function (DUF3533)
Pfam: PF12051 (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: CL0181
Length: 382
Sequences: 2486
Seq/Len: 6.51
HH_delta: 0.775 (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
33_A93_Y0.659126.197
84_A96_A0.437974.118
102_N106_N0.421313.961
289_F353_G0.358733.373
80_S83_E0.344363.238
34_V53_V0.342713.222
36_N49_G0.294432.768
38_D104_T0.283332.664
35_V84_A0.27682.603
106_N111_L0.262982.473
371_G375_A0.253612.385
102_N105_A0.251622.366
290_S350_I0.248362.335
87_G93_Y0.246512.318
367_G371_G0.243912.293
40_G49_G0.243512.290
49_G104_T0.24012.258
36_N40_G0.239062.248
56_L146_I0.238142.239
86_E90_D0.224572.112
33_A87_G0.221332.081
36_N39_G0.219712.066
232_E248_R0.216042.031
88_V96_A0.209661.971
99_I103_A0.209361.969
38_D102_N0.19041.790
48_I107_L0.185751.747
352_E369_N0.182461.716
87_G92_K0.177561.670
337_G341_Y0.177541.669
292_L373_L0.176951.664
356_V362_C0.175221.648
343_Y348_H0.171181.610
48_I104_T0.170051.599
40_G104_T0.168441.584
85_R89_Y0.166881.569
37_Q98_V0.165961.560
97_I127_V0.163421.537
332_L335_S0.162221.525
193_Y322_I0.162051.524
370_Y374_F0.158961.495
261_L287_W0.158711.492
229_I234_G0.158681.492
32_V97_I0.156711.473
83_E87_G0.156321.470
368_R372_I0.155631.463
322_I326_S0.154421.452
240_K243_H0.154291.451
289_F370_Y0.152711.436
298_G301_N0.150121.412
37_Q81_P0.149291.404
36_N50_N0.148831.399
257_F261_L0.147361.386
230_H248_R0.146981.382
372_I376_W0.146411.377
242_R246_I0.146021.373
332_L343_Y0.145751.370
77_F87_G0.14491.362
104_T108_Y0.144671.360
286_Y354_L0.142781.342
93_Y96_A0.14231.338
261_L283_F0.142141.336
38_D99_I0.141381.329
356_V360_D0.140371.320
323_L326_S0.139411.311
95_A142_I0.13621.281
99_I125_I0.136171.280
33_A77_F0.134971.269
52_V150_E0.133231.253
36_N104_T0.132541.246
227_G232_E0.13171.238
31_P94_W0.131511.237
33_A96_A0.131471.236
340_R344_A0.130341.226
260_S287_W0.129771.220
207_P210_V0.128831.211
284_V288_M0.128551.209
253_W291_W0.127921.203
83_E86_E0.127561.199
301_N305_I0.12731.197
330_Y334_L0.126591.190
349_N369_N0.125861.183
78_P83_E0.124811.174
285_V357_I0.123891.165
227_G231_M0.123681.163
81_P96_A0.122641.153
53_V97_I0.121661.144
353_G373_L0.121431.142
230_H234_G0.121031.138
259_L263_Y0.120341.132
51_A54_Q0.118791.117
253_W295_S0.118471.114
39_G49_G0.118051.110
208_S355_R0.117441.104
297_V301_N0.116421.095
338_F341_Y0.116311.094
95_A146_I0.115781.089
228_P232_E0.115751.088
32_V95_A0.11541.085
261_L265_L0.114061.072
219_T225_F0.112921.062
285_V370_Y0.111771.051
289_F357_I0.111331.047
54_Q57_Q0.110931.043
235_L244_Y0.10921.027
84_A87_G0.108691.022
263_Y267_S0.107971.015
308_I313_M0.107921.015
292_L374_F0.10771.013
355_R359_F0.107411.010
364_G367_G0.107031.006
201_D227_G0.106891.005
201_D327_S0.106591.002
353_G366_L0.106140.998
371_G374_F0.105870.995
86_E261_L0.105640.993
146_I299_L0.105610.993
296_A376_W0.105480.992
344_A349_N0.105210.989
254_I258_F0.105110.988
312_F316_W0.104280.980
293_Y350_I0.104230.980
248_R311_P0.103960.977
97_I125_I0.103360.972
28_H60_P0.103350.972
347_M351_Y0.103210.970
40_G100_P0.102780.966
314_P318_L0.102310.962
254_I309_G0.10230.962
231_M234_G0.102270.962
336_P339_Y0.101860.958
127_V146_I0.101550.955
248_R334_L0.101210.952
335_S340_R0.101110.951
105_A109_S0.100830.948
232_E343_Y0.100680.947
298_G305_I0.100670.947
36_N99_I0.100630.946
207_P305_I0.100260.943
274_F286_Y0.099780.938
365_Q368_R0.099430.935
284_V287_W0.098980.931
49_G52_V0.098970.931
56_L149_L0.098860.930
256_Y294_M0.098820.929
103_A153_V0.098750.929
265_L268_L0.098750.929
299_L302_E0.09870.928
332_L340_R0.098130.923
266_V327_S0.0980.921
322_I327_S0.097480.917
332_L348_H0.097430.916
76_E92_K0.097420.916
368_R371_G0.097230.914
260_S290_S0.097110.913
250_I254_I0.096980.912
194_I200_T0.096960.912
81_P84_A0.09670.909
228_P234_G0.096640.909
186_A374_F0.096560.908
39_G50_N0.096410.907
364_G368_R0.096410.907
195_D322_I0.09620.905
232_E326_S0.096130.904
270_F331_P0.096050.903
36_N53_V0.096010.903
344_A348_H0.095560.899
49_G99_I0.095420.897
363_K367_G0.094760.891
82_E268_L0.094250.886
35_V96_A0.094150.885
83_E101_P0.094010.884
285_V363_K0.093660.881
124_A371_G0.093630.880
53_V77_F0.093440.879
225_F249_W0.093030.875
205_L208_S0.092810.873
211_G215_L0.092630.871
230_H301_N0.092550.870
193_Y197_R0.092470.869
49_G103_A0.092210.867
208_S359_F0.09220.867
284_V364_G0.091960.865
230_H298_G0.091520.861
204_A218_L0.09140.859
229_I232_E0.091380.859
289_F366_L0.091370.859
197_R327_S0.091160.857
125_I154_N0.090890.855
193_Y196_L0.090630.852
207_P359_F0.090470.851
221_F230_H0.089850.845
136_T140_S0.089620.843
39_G47_N0.089050.837
288_M370_Y0.088870.836
88_V91_G0.088740.834
272_V358_F0.088540.833
246_I367_G0.088430.831
293_Y297_V0.087980.827
362_C365_Q0.087850.826
348_H352_E0.087760.825
220_F224_M0.087660.824
332_L339_Y0.087640.824
264_S287_W0.087560.823
197_R200_T0.087540.823
367_G375_A0.087490.823
57_Q155_S0.087450.822
247_Y251_I0.087060.819
240_K298_G0.087040.818
216_L320_W0.08680.816
36_N102_N0.086790.816
227_G230_H0.086590.814
258_F295_S0.086430.813
85_R90_D0.086420.813
349_N352_E0.086390.812
148_T352_E0.086280.811
211_G323_L0.086230.811
107_L152_A0.086140.810
35_V220_F0.086120.810
259_L264_S0.086120.810
347_M355_R0.086080.809
34_V105_A0.085960.808
254_I342_G0.085720.806
273_D335_S0.085710.806
257_F291_W0.085440.803
359_F376_W0.085350.803
81_P307_I0.085170.801
299_L310_P0.084830.798
81_P85_R0.084760.797
234_G343_Y0.084660.796
39_G105_A0.084550.795
235_L238_K0.084370.793
76_E288_M0.084330.793
314_P327_S0.084320.793
32_V360_D0.084020.790
106_N124_A0.083970.790
314_P328_T0.083840.788
199_F326_S0.083740.787
294_M297_V0.08360.786
291_W295_S0.083470.785
372_I375_A0.083320.783
223_F298_G0.083230.783
154_N157_F0.0830.780
48_I51_A0.082810.779
197_R326_S0.082780.778
229_I343_Y0.082690.777
34_V99_I0.082670.777
86_E147_Q0.082570.776
322_I325_V0.08250.776
367_G374_F0.08220.773
254_I371_G0.082190.773
199_F202_P0.08190.770
341_Y344_A0.081860.770
35_V77_F0.081760.769
333_E337_G0.081690.768
221_F224_M0.081480.766
353_G370_Y0.081380.765
200_T327_S0.081220.764
283_F287_W0.08120.763
39_G148_T0.080770.759
271_Q284_V0.080440.756
144_P254_I0.08040.756
94_W131_S0.08010.753
221_F325_V0.080040.753
199_F327_S0.080020.752
196_L200_T0.079950.752
258_F262_F0.079850.751
219_T222_Q0.079720.750
51_A152_A0.079690.749
107_L242_R0.079660.749
32_V56_L0.079630.749
88_V242_R0.079610.749
132_G326_S0.079590.748
310_P313_M0.079550.748
315_F331_P0.079120.744
104_T107_L0.078960.742
193_Y326_S0.078880.742
138_V224_M0.078670.740
188_P266_V0.078610.739
196_L199_F0.078420.737
200_T326_S0.078410.737
321_V324_N0.078280.736
304_V316_W0.078270.736
228_P326_S0.078170.735
197_R322_I0.078060.734
331_P335_S0.078050.734
254_I288_M0.078030.734
357_I370_Y0.077930.733
215_L296_A0.07780.732
228_P231_M0.077790.731
147_Q151_T0.077720.731
201_D326_S0.077720.731
55_A156_Q0.07770.731
228_P248_R0.077690.730
373_L376_W0.077690.730
206_A298_G0.077610.730
246_I250_I0.077570.729
190_T284_V0.07750.729
271_Q280_K0.07750.729
209_Q212_L0.077370.727
38_D49_G0.077350.727
208_S236_R0.077190.726
82_E86_E0.077110.725
102_N143_L0.077080.725
216_L296_A0.077050.724
52_V153_V0.076990.724
208_S212_L0.076990.724
100_P103_A0.076960.724
266_V326_S0.076910.723
28_H102_N0.076750.722
197_R201_D0.076740.722
270_F359_F0.076690.721
201_D259_L0.076610.720
136_T327_S0.07660.720
57_Q86_E0.076520.719
86_E89_Y0.07630.717
88_V93_Y0.076290.717
266_V269_A0.076250.717
129_Y138_V0.076140.716
316_W319_F0.076140.716
350_I353_G0.076080.715
296_A372_I0.076050.715
238_K313_M0.076040.715
196_L201_D0.075960.714
321_V327_S0.075730.712
357_I366_L0.075730.712
126_T147_Q0.07570.712
333_E366_L0.07570.712
267_S326_S0.075680.712
231_M343_Y0.075650.711
214_Y290_S0.075620.711
209_Q252_S0.075610.711
38_D106_N0.075580.711
243_H247_Y0.075520.710
105_A332_L0.075480.710
78_P375_A0.07530.708
228_P236_R0.075140.707
298_G302_E0.075090.706
317_L320_W0.075060.706
362_C366_L0.075050.706
230_H313_M0.074950.705
204_A208_S0.074890.704
321_V326_S0.074770.703
211_G351_Y0.074490.700
57_Q76_E0.074480.700
215_L225_F0.074460.700
363_K368_R0.074350.699
224_M228_P0.074220.698
33_A98_V0.07420.698
51_A157_F0.074180.697
222_Q225_F0.073830.694
105_A288_M0.073810.694
95_A139_S0.073790.694
47_N220_F0.073760.694
37_Q101_P0.073710.693
155_S364_G0.073650.692
54_Q82_E0.073580.692
192_T299_L0.073550.692
138_V142_I0.073530.691
210_V267_S0.07350.691
32_V93_Y0.073420.690
99_I107_L0.073210.688
267_S272_V0.073160.688
274_F315_F0.073120.688
88_V295_S0.073070.687
298_G316_W0.072870.685
187_Q271_Q0.072840.685
55_A153_V0.072730.684
285_V289_F0.072630.683
296_A300_A0.072570.682
215_L317_L0.072540.682
219_T223_F0.072530.682
356_V366_L0.072470.681
98_V333_E0.072420.681
101_P210_V0.072250.679
261_L324_N0.072230.679
56_L107_L0.072090.678
37_Q250_I0.072050.677
148_T152_A0.071840.675
249_W306_S0.07170.674
90_D97_I0.071650.674
188_P368_R0.071330.671
287_W290_S0.071290.670
353_G356_V0.071280.670
76_E86_E0.071270.670
223_F325_V0.071250.670
39_G83_E0.071240.670
111_L186_A0.071110.669
76_E190_T0.071060.668
264_S345_M0.071040.668
298_G303_N0.070920.667
94_W250_I0.070720.665
125_I201_D0.070720.665
148_T156_Q0.070710.665
218_L297_V0.070710.665
32_V53_V0.070670.664
329_F334_L0.070510.663
37_Q126_T0.070380.662
47_N104_T0.070370.662
337_G340_R0.070350.661
82_E374_F0.070340.661
209_Q217_I0.070240.660
319_F322_I0.070230.660
239_L244_Y0.070220.660
369_N372_I0.07020.660
251_I305_I0.070180.660
109_S333_E0.070170.660
190_T269_A0.070020.658
47_N53_V0.069920.657
86_E92_K0.069890.657
193_Y327_S0.069890.657
76_E240_K0.069850.657
40_G50_N0.069830.657
80_S341_Y0.069820.656
222_Q226_L0.069790.656
99_I250_I0.069780.656
320_W325_V0.069780.656
253_W323_L0.069660.655
281_G322_I0.069610.655
305_I311_P0.069570.654
197_R202_P0.069520.654
47_N51_A0.06950.653
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
3cniA0.403199.40.775
2p0sA0.366596.40.907
3to5A0.332528.20.956
3ktoA0.332511.50.963
3h5iA0.340310.80.963
3luaA0.340310.50.964
4hygA0.408410.40.964
2qr3A0.33519.50.964
4igaA0.30379.40.964
3jteA0.34828.40.965
If you are interested in a protein containing this domain,
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