GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF819 - Protein of unknown function (DUF819)
Pfam: PF05684 (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: 2481
Seq/Len: 6.56
HH_delta: 0.795 (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_V305_I0.228012.865
242_L246_V0.19282.423
75_R78_L0.16992.135
102_A302_I0.160182.013
94_G309_L0.160112.012
285_D288_E0.159282.001
31_C278_A0.156331.964
224_A228_W0.153471.928
244_L248_T0.153161.925
306_H310_M0.144821.820
104_L108_G0.143281.800
105_L301_I0.142361.789
69_L121_L0.138691.743
243_I246_V0.135531.703
305_I309_L0.134621.692
308_L312_I0.133671.680
97_I104_L0.133271.675
296_F300_F0.130541.640
241_W245_T0.126981.596
287_S291_D0.121791.530
153_D161_F0.121381.525
129_S154_N0.120261.511
80_L84_L0.116991.470
277_F281_G0.116541.464
95_T161_F0.115331.449
103_F107_G0.112151.409
249_L253_T0.111651.403
132_F153_D0.110711.391
141_V146_F0.10821.360
245_T249_L0.107511.351
106_F117_I0.107421.350
63_L66_P0.10731.348
109_F297_L0.106991.344
182_T185_I0.105571.327
90_I309_L0.104921.318
133_V151_A0.104291.310
246_V250_G0.103771.304
26_P277_F0.101771.279
293_P297_L0.101481.275
78_L82_G0.101141.271
187_A190_E0.101011.269
35_G281_G0.100391.261
135_V221_L0.099891.255
245_T248_T0.099781.254
32_Y36_M0.099651.252
127_G130_V0.099151.246
249_L252_A0.098741.241
300_F304_A0.096831.217
30_L34_L0.096771.216
88_F92_A0.095911.205
102_A106_F0.095271.197
181_D184_S0.095271.197
229_L282_A0.095151.196
104_L316_L0.095071.195
60_L271_F0.095021.194
124_S132_F0.094411.186
130_V154_N0.094291.185
269_G273_L0.093931.180
65_I161_F0.093911.180
51_P54_D0.093441.174
267_E270_T0.092911.167
97_I101_V0.092851.167
122_A135_V0.09251.162
34_L54_D0.092341.160
136_A146_F0.092311.160
207_D210_F0.092161.158
246_V251_L0.092151.158
240_T246_V0.091771.153
137_E151_A0.09171.152
144_S288_E0.091051.144
186_E189_E0.090971.143
214_V217_A0.09091.142
176_R304_A0.090781.141
266_S270_T0.090411.136
73_D76_R0.089731.128
124_S277_F0.089361.123
113_E320_D0.08921.121
126_I217_A0.089131.120
82_G86_L0.089011.118
160_W298_F0.088861.117
201_R308_L0.088781.116
84_L91_G0.088491.112
174_F177_W0.088141.108
24_Y27_G0.087771.103
203_P208_L0.087451.099
246_V249_L0.087281.097
27_G274_Y0.087261.096
68_L130_V0.087211.096
25_L38_L0.086931.092
150_L302_I0.086921.092
313_L317_F0.086791.091
264_G267_E0.086621.088
270_T274_Y0.086241.084
154_N277_F0.086181.083
53_Y282_A0.086021.081
69_L131_N0.085711.077
138_A221_L0.085681.077
275_L285_D0.08561.076
113_E116_K0.085521.075
76_R79_R0.085461.074
26_P149_A0.085421.073
83_R87_A0.085091.069
70_L249_L0.085011.068
57_W280_I0.084981.068
56_V275_L0.084721.065
102_A118_A0.084551.062
176_R313_L0.084361.060
225_L228_W0.084351.060
197_A304_A0.084111.057
242_L245_T0.083951.055
297_L304_A0.083891.054
220_A261_L0.083591.050
142_S260_K0.083571.050
55_F59_Y0.083061.044
129_S153_D0.083051.044
94_G101_V0.08291.042
37_L41_L0.08271.039
161_F277_F0.08271.039
169_P272_L0.082671.039
102_A121_L0.082651.039
133_V144_S0.082611.038
162_A299_G0.082241.033
132_F147_A0.081591.025
50_S293_P0.081581.025
260_K263_R0.081231.021
89_L142_S0.080911.017
130_V153_D0.080821.016
194_A197_A0.080771.015
87_A313_L0.080511.012
26_P30_L0.080321.009
263_R301_I0.079681.001
157_M277_F0.079641.001
130_V280_I0.079611.000
109_F261_L0.07961.000
211_L214_V0.079470.999
161_F283_S0.079270.996
93_V97_I0.078940.992
117_I298_F0.07870.989
236_I268_L0.078650.988
37_L93_V0.078630.988
299_G303_L0.07860.988
33_L255_F0.078420.985
151_A273_L0.078230.983
309_L313_L0.078150.982
90_I308_L0.077890.979
124_S218_V0.077850.978
67_L73_D0.077750.977
56_V78_L0.077650.976
227_A258_F0.07760.975
29_V296_F0.077560.975
185_I189_E0.077520.974
26_P276_F0.077520.974
71_S95_T0.077460.973
220_A286_I0.077450.973
121_L280_I0.077390.972
218_V279_V0.07730.971
124_S302_I0.077260.971
144_S150_L0.077190.970
104_L317_F0.076970.967
257_P316_L0.076930.967
104_L308_L0.076880.966
120_M298_F0.076590.962
224_A227_A0.076550.962
64_A273_L0.076480.961
240_T284_A0.076440.961
28_A154_N0.076390.960
221_L225_L0.076180.957
168_P171_A0.076140.957
235_G262_L0.076130.957
133_V277_F0.076010.955
195_E203_P0.0760.955
127_G131_N0.0760.955
66_P70_L0.075880.953
72_A276_F0.075330.947
56_V60_L0.075220.945
54_D142_S0.075110.944
94_G312_I0.074950.942
286_I300_F0.074790.940
90_I313_L0.074760.939
80_L299_G0.074710.939
265_A275_L0.074690.939
108_G111_G0.074660.938
162_A236_I0.074640.938
294_S297_L0.074510.936
136_A235_G0.074470.936
38_L43_L0.074360.934
105_L173_K0.074230.933
50_S54_D0.07420.932
121_L124_S0.074090.931
25_L317_F0.074020.930
189_E194_A0.073950.929
129_S161_F0.073570.924
125_Y135_V0.07340.922
307_L311_L0.073360.922
65_I239_S0.073290.921
73_D156_V0.073280.921
44_I282_A0.073270.921
245_T289_L0.073260.921
195_E201_R0.073150.919
37_L43_L0.073090.918
68_L279_V0.073080.918
33_L172_R0.073040.918
95_T150_L0.073030.918
95_T133_V0.072910.916
31_C57_W0.072770.914
133_V161_F0.072720.914
142_S291_D0.072710.914
54_D257_P0.07270.914
62_P158_A0.072580.912
286_I290_L0.072560.912
61_V64_A0.072550.912
44_I90_I0.072430.910
66_P132_F0.072310.909
38_L251_L0.072290.908
289_L293_P0.072250.908
91_G95_T0.072220.907
157_M190_E0.072190.907
29_V102_A0.072130.906
264_G268_L0.072120.906
118_A123_G0.072070.906
292_A296_F0.072070.906
124_S133_V0.071980.904
199_W244_L0.071930.904
26_P154_N0.071880.903
43_L94_G0.071840.903
130_V277_F0.071760.902
163_F169_P0.071750.902
248_T251_L0.07170.901
280_I284_A0.071670.901
102_A125_Y0.071610.900
132_F136_A0.071560.899
74_L254_S0.071550.899
36_M39_S0.071350.897
253_T284_A0.071340.896
278_A299_G0.071250.895
161_F298_F0.071130.894
277_F306_H0.071080.893
60_L272_L0.071010.892
179_K189_E0.070960.892
29_V185_I0.070920.891
85_L115_W0.070880.891
73_D245_T0.070850.890
119_G126_I0.070810.890
88_F132_F0.070780.889
60_L63_L0.07070.888
188_L206_Q0.070690.888
218_V221_L0.070630.888
273_L280_I0.070440.885
239_S246_V0.070430.885
242_L254_S0.070380.884
133_V271_F0.070220.882
106_F298_F0.070190.882
137_E313_L0.070150.881
95_T126_I0.070120.881
248_T252_A0.070080.881
153_D159_L0.069930.879
125_Y150_L0.069850.878
310_M314_G0.069690.876
63_L272_L0.069670.875
218_V222_S0.06960.875
154_N161_F0.06950.873
241_W244_L0.069450.873
73_D78_L0.069390.872
208_L214_V0.069390.872
26_P211_L0.069340.871
157_M273_L0.069320.871
93_V220_A0.069290.871
62_P164_L0.069290.871
261_L264_G0.069290.871
290_L296_F0.069280.871
89_L224_A0.069280.871
206_Q221_L0.069230.870
207_D213_A0.069170.869
28_A61_V0.069160.869
150_L154_N0.069150.869
105_L113_E0.069080.868
188_L211_L0.069080.868
86_L317_F0.069020.867
26_P29_V0.069020.867
40_N120_M0.068950.866
90_I305_I0.06890.866
74_L199_W0.068890.866
66_P242_L0.068780.864
59_Y229_L0.068770.864
140_G200_A0.068650.863
65_I281_G0.068560.861
26_P70_L0.068550.861
50_S278_A0.068350.859
173_K177_W0.068340.859
101_V196_E0.068330.859
143_D304_A0.068330.859
64_A162_A0.068280.858
160_W306_H0.068260.858
125_Y306_H0.068260.858
64_A134_A0.068250.858
119_G239_S0.068230.857
86_L268_L0.068220.857
169_P173_K0.068180.857
168_P184_S0.068170.857
51_P289_L0.06810.856
25_L236_I0.068090.856
177_W185_I0.068060.855
123_G132_F0.068050.855
219_V291_D0.067990.854
67_L153_D0.067910.853
59_Y132_F0.067880.853
150_L153_D0.067880.853
256_P286_I0.067810.852
68_L218_V0.067780.852
41_L90_I0.067730.851
184_S188_L0.067720.851
267_E315_K0.06770.851
104_L113_E0.067660.850
224_A229_L0.067630.850
250_G253_T0.067620.850
241_W276_F0.067520.848
170_F275_L0.067450.848
186_E210_F0.067440.847
94_G158_A0.067410.847
114_G117_I0.067410.847
219_V223_H0.06740.847
288_E291_D0.067390.847
196_E200_A0.067380.847
152_A299_G0.067250.845
252_A260_K0.067220.845
107_G114_G0.06720.844
149_A299_G0.067180.844
182_T304_A0.067170.844
91_G94_G0.06710.843
76_R253_T0.067080.843
140_G222_S0.067060.843
187_A208_L0.067060.843
204_I207_D0.067050.843
37_L108_G0.067040.842
37_L219_V0.067020.842
274_Y302_I0.066970.842
68_L238_S0.06690.841
168_P271_F0.066870.840
118_A313_L0.066840.840
90_I97_I0.066770.839
203_P207_D0.066760.839
154_N306_H0.066750.839
258_F316_L0.066670.838
29_V121_L0.066650.837
79_R176_R0.066570.836
76_R271_F0.066570.836
107_G111_G0.066530.836
225_L271_F0.066510.836
95_T160_W0.06650.836
180_A307_L0.066290.833
121_L131_N0.066150.831
221_L258_F0.066150.831
89_L93_V0.066140.831
29_V171_A0.066080.830
175_D179_K0.066050.830
96_V227_A0.066040.830
42_G255_F0.0660.829
225_L262_L0.0660.829
113_E291_D0.065960.829
39_S282_A0.065880.828
75_R263_R0.065870.828
69_L276_F0.065820.827
112_P304_A0.06580.827
206_Q249_L0.06580.827
26_P147_A0.065790.827
71_S76_R0.065740.826
267_E277_F0.065710.826
246_V254_S0.065710.826
122_A289_L0.06570.826
276_F289_L0.065590.824
244_L262_L0.06550.823
297_L300_F0.065490.823
77_I268_L0.065450.822
116_K298_F0.065380.822
315_K319_I0.065160.819
129_S151_A0.065130.818
161_F281_G0.065110.818
223_H227_A0.06510.818
249_L260_K0.0650.817
124_S129_S0.064940.816
28_A31_C0.064910.816
66_P241_W0.064760.814
132_F139_L0.064740.813
97_I305_I0.064710.813
160_W163_F0.064710.813
125_Y276_F0.06460.812
26_P250_G0.064570.811
126_I157_M0.064570.811
35_G69_L0.064480.810
51_P248_T0.064460.810
70_L245_T0.064360.809
65_I302_I0.064350.809
69_L160_W0.064350.809
113_E117_I0.064350.809
201_R204_I0.06430.808
185_I257_P0.064290.808
170_F311_L0.064270.808
136_A141_V0.064210.807
103_F114_G0.064150.806
77_I250_G0.06410.805
162_A244_L0.064070.805
121_L302_I0.064020.804
64_A292_A0.063990.804
133_V147_A0.063980.804
96_V118_A0.063940.803
134_A285_D0.063930.803
120_M282_A0.063890.803
105_L111_G0.063770.801
177_W180_A0.06360.799
294_S298_F0.063550.799
156_V178_T0.063540.798
225_L316_L0.063450.797
217_A307_L0.063380.796
125_Y153_D0.063380.796
207_D258_F0.063350.796
33_L155_V0.063340.796
42_G51_P0.063320.796
126_I281_G0.063290.795
129_S141_V0.063290.795
308_L315_K0.063260.795
162_A269_G0.06320.794
85_L155_V0.063190.794
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
1zcdA0.899599.10.795
3zuxA0.804297.40.884
1zcdA0.452483.30.933
3zuxA0.468370.70.94
2looA0.240725.60.954
2losA0.251312.80.96
3tijA0.46037.60.964
2nwlA0.939240.968
4kppA0.28573.60.968
4j05A0.49743.40.969
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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