GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF262 - Protein of unknown function DUF262
Pfam: PF03235 (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: CL0248
Length: 221
Sequences: 1037
Seq/Len: 4.69
HH_delta: 0.926 (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
61_I68_L0.285992.883
201_E218_A0.234482.363
215_L218_A0.209442.111
28_I160_N0.195621.972
28_I164_I0.191221.927
43_I71_L0.190671.922
163_Y167_K0.18561.871
21_Y70_T0.180881.823
110_R116_F0.178031.794
202_R206_R0.176311.777
22_V208_K0.168541.699
48_L61_I0.167561.689
24_D27_Q0.16681.681
32_I167_K0.164041.653
41_Y180_L0.156021.573
3_D7_N0.1541.552
73_L160_N0.152381.536
44_G207_G0.148231.494
27_Q208_K0.144941.461
48_L184_V0.139931.410
17_Y60_E0.137921.390
41_Y218_A0.137831.389
42_P183_I0.137761.389
198_E201_E0.132371.334
33_D167_K0.1321.331
41_Y175_F0.129871.309
206_R217_K0.129791.308
12_I184_V0.127871.289
32_I214_D0.127261.283
197_F216_L0.126451.275
17_Y34_S0.126321.273
74_F164_I0.125851.269
31_L71_L0.124561.256
42_P214_D0.123311.243
170_E174_D0.122571.235
42_P46_I0.122261.232
214_D217_K0.120821.218
106_K113_D0.120381.213
34_S42_P0.119541.205
33_D166_E0.119531.205
172_F176_L0.11951.205
113_D117_F0.118831.198
107_Y113_D0.118191.191
24_D156_N0.117961.189
27_Q70_T0.117471.184
12_I183_I0.117411.183
5_F179_N0.117011.179
100_E104_R0.11661.175
17_Y201_E0.116481.174
28_I74_F0.115921.168
3_D6_S0.115591.165
196_A205_S0.115441.164
73_L209_P0.114581.155
32_I70_T0.114441.154
154_D157_I0.113431.143
42_P45_S0.113371.143
105_F109_I0.112861.138
86_I176_L0.11211.130
213_F218_A0.111771.127
104_R107_Y0.111491.124
20_D214_D0.111241.121
45_S185_I0.110981.119
167_K171_D0.110111.110
187_L197_F0.109971.108
180_L218_A0.109231.101
197_F201_E0.108581.094
202_R217_K0.108191.091
123_N126_E0.106811.077
118_S122_R0.106371.072
109_I113_D0.106211.071
194_D199_I0.105791.066
115_E119_E0.105681.065
89_L92_E0.105461.063
77_A161_Y0.105061.059
106_K109_I0.1051.058
47_L199_I0.104931.058
180_L201_E0.104111.049
36_L176_L0.103361.042
84_K88_D0.103131.040
17_Y160_N0.102951.038
32_I163_Y0.102881.037
61_I199_I0.102731.035
17_Y21_Y0.102671.035
77_A168_L0.102461.033
82_K86_I0.102081.029
16_D197_F0.101481.023
23_W200_F0.101421.022
198_E203_L0.101071.019
41_Y47_L0.100591.014
22_V206_R0.10011.009
77_A164_I0.100061.009
196_A217_K0.099841.006
73_L77_A0.099751.005
151_D154_D0.09880.996
196_A212_A0.09870.995
159_E162_K0.098530.993
3_D8_I0.098020.988
47_L213_F0.097870.986
43_I182_L0.097790.986
91_K94_E0.097780.986
73_L164_I0.097680.985
187_L196_A0.097080.979
17_Y62_I0.096860.976
75_L177_L0.096850.976
42_P47_L0.096530.973
32_I202_R0.096470.972
193_E201_E0.095860.966
198_E208_K0.09580.966
84_K87_K0.095770.965
34_S41_Y0.095760.965
199_I220_L0.095630.964
60_E217_K0.095590.964
82_K89_L0.095360.961
209_P216_L0.094660.954
195_D201_E0.094490.952
15_P18_Q0.094320.951
185_I214_D0.094270.950
87_K94_E0.094160.949
212_A216_L0.093470.942
35_I43_I0.09320.939
5_F70_T0.09290.936
202_R210_L0.092760.935
4_L68_L0.092660.934
35_I181_K0.092160.929
21_Y73_L0.09210.928
160_N205_S0.09190.926
166_E170_E0.091770.925
42_P213_F0.091360.921
73_L76_K0.091120.918
155_K188_E0.090710.914
31_L34_S0.090690.914
26_E166_E0.090650.914
29_E220_L0.090560.913
194_D197_F0.090450.912
37_E171_D0.090370.911
17_Y200_F0.090210.909
16_D196_A0.089770.905
102_K107_Y0.089510.902
71_L182_L0.089330.900
158_I162_K0.089110.898
42_P185_I0.088820.895
25_E166_E0.088630.893
48_L186_E0.088480.892
5_F186_E0.088060.888
30_E197_F0.087850.885
101_D117_F0.087380.881
13_V58_T0.087370.881
105_F108_N0.087350.880
14_I184_V0.087310.880
23_W75_L0.087040.877
100_E107_Y0.0870.877
99_E106_K0.086850.875
20_D196_A0.086790.875
187_L205_S0.086740.874
41_Y201_E0.086440.871
90_L169_K0.086380.871
152_N160_N0.086040.867
42_P199_I0.085980.867
85_D90_L0.085730.864
46_I188_E0.085670.864
41_Y197_F0.085630.863
31_L160_N0.085290.860
197_F205_S0.085230.859
76_K120_L0.084710.854
106_K110_R0.084620.853
214_D218_A0.084570.852
101_D119_E0.084560.852
169_K173_I0.084530.852
199_I205_S0.08440.851
31_L105_F0.084150.848
183_I203_L0.084020.847
30_E35_I0.084020.847
28_I163_Y0.083660.843
6_S56_N0.08350.842
5_F94_E0.083390.841
178_N186_E0.083260.839
47_L200_F0.082940.836
4_L9_K0.082870.835
47_L203_L0.08250.832
90_L93_I0.082410.831
41_Y44_G0.082390.830
122_R125_K0.082310.830
29_E33_D0.08230.830
15_P19_R0.082210.829
14_I209_P0.082140.828
44_G47_L0.082120.828
84_K178_N0.081570.822
31_L43_I0.081550.822
205_S212_A0.08130.819
206_R214_D0.081130.818
89_L93_I0.081020.817
34_S47_L0.080380.810
47_L214_D0.080350.810
39_R172_F0.080340.810
102_K170_E0.080090.807
108_N121_I0.079740.804
59_Y213_F0.07970.803
7_N57_N0.079640.803
187_L193_E0.079610.802
25_E29_E0.079440.801
62_I196_A0.079370.800
196_A206_R0.079340.800
156_N159_E0.079030.797
42_P203_L0.078960.796
5_F9_K0.078820.794
35_I60_E0.078740.794
20_D201_E0.078610.792
197_F215_L0.078510.791
12_I20_D0.078460.791
198_E202_R0.078460.791
162_K165_F0.07840.790
160_N164_I0.078290.789
54_D92_E0.078120.787
101_D123_N0.078090.787
105_F121_I0.078070.787
185_I194_D0.077960.786
197_F211_S0.077830.784
26_E33_D0.07780.784
48_L73_L0.077720.783
85_D166_E0.077660.783
16_D20_D0.077330.779
57_N179_N0.077310.779
187_L194_D0.077290.779
106_K114_K0.077050.777
52_N117_F0.077010.776
20_D215_L0.076960.776
13_V60_E0.076950.776
199_I213_F0.076810.774
68_L211_S0.07670.773
202_R214_D0.07670.773
155_K181_K0.076660.773
197_F202_R0.076650.773
123_N170_E0.076590.772
197_F214_D0.076430.770
112_K117_F0.076420.770
14_I126_E0.076070.767
22_V214_D0.076010.766
164_I168_L0.075980.766
100_E106_K0.075810.764
153_S164_I0.075740.763
31_L213_F0.075650.763
195_D211_S0.075580.762
187_L216_L0.075540.761
22_V62_I0.075290.759
55_S58_T0.07510.757
199_I214_D0.074920.755
22_V34_S0.074880.755
20_D160_N0.074680.753
111_E117_F0.074670.753
37_E219_K0.074490.751
3_D88_D0.07440.750
158_I178_N0.074330.749
101_D105_F0.07430.749
60_E212_A0.074290.749
176_L180_L0.074250.748
4_L92_E0.074090.747
48_L182_L0.074070.747
196_A215_L0.073950.745
166_E169_K0.073940.745
113_D116_F0.073870.745
45_S183_I0.073830.744
171_D176_L0.07380.744
119_E122_R0.073750.743
17_Y23_W0.07370.743
36_L124_D0.073680.743
31_L35_I0.073620.742
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
1xw3A0.44870.50.926
1vz0A0.855238.60.939
1yzsA0.44837.20.939
2es9A0.285119.90.947
1u5tB0.27154.40.96
2l02A0.15384.10.96
3g2bA0.429940.96
3rcoA0.26243.90.961
2lnbA0.20813.40.962
2jt1A0.14033.30.962
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