GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF1997 - Protein of unknown function (DUF1997)
Pfam: PF09366 (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. )
Length: 158
Sequences: 798
Seq/Len: 5.05
HH_delta: 0.587 (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
93_E102_E0.26912.460
28_G31_T0.26062.382
92_P99_T0.257192.351
26_P29_D0.239892.193
140_I144_F0.210861.928
25_E33_R0.20191.846
9_S68_C0.19691.800
3_P6_E0.194731.780
4_L99_T0.189481.732
95_P98_R0.178681.634
115_P118_R0.1771.618
56_P69_E0.166931.526
54_V58_D0.161841.480
55_W71_R0.161591.477
139_Q143_R0.156841.434
70_L92_P0.154251.410
35_K38_P0.152921.398
20_D115_P0.150361.375
12_Q16_S0.149971.371
7_Y13_R0.14771.350
141_K145_L0.143371.311
8_L101_L0.142471.302
22_M42_F0.139951.279
107_L129_G0.139441.275
35_K40_Q0.138451.266
67_D91_Y0.138361.265
93_E100_R0.137791.260
139_Q142_P0.13531.237
16_S143_R0.134821.233
26_P30_N0.134261.227
34_L121_P0.131381.201
28_G71_R0.127931.170
3_P144_F0.127861.169
141_K144_F0.126291.155
95_P100_R0.125781.150
104_D138_R0.124321.137
123_S137_L0.123151.126
103_G137_L0.122711.122
126_E130_N0.122481.120
5_A121_P0.120841.105
6_E27_L0.120091.098
54_V57_Q0.119541.093
117_F122_E0.11811.080
36_M88_A0.116891.069
120_L125_L0.116741.067
94_E97_G0.116551.066
35_K125_L0.116441.065
4_L72_G0.116331.063
37_R41_F0.114361.045
82_F117_F0.113051.034
12_Q33_R0.112281.026
36_M41_F0.112171.025
20_D72_G0.111331.018
131_A135_Q0.110911.014
21_P24_I0.110321.009
82_F116_P0.11021.007
14_W46_V0.109671.003
33_R130_N0.109621.002
54_V59_D0.109060.997
21_P103_G0.108750.994
70_L132_V0.108750.994
56_P89_S0.108720.994
91_Y104_D0.107410.982
55_W58_D0.107350.981
70_L131_A0.106990.978
40_Q47_E0.106290.972
26_P31_T0.106250.971
86_L128_T0.105640.966
39_F134_Q0.105570.965
37_R46_V0.104770.958
41_F117_F0.104330.954
122_E126_E0.102140.934
95_P102_E0.102050.933
89_S104_D0.101750.930
134_Q138_R0.101620.929
12_Q15_F0.101610.929
87_Q108_S0.101340.926
21_P86_L0.101260.926
9_S124_L0.10110.924
104_D108_S0.101050.924
20_D86_L0.100820.922
34_L128_T0.100750.921
84_L130_N0.100080.915
18_L133_L0.099810.912
15_F124_L0.099680.911
27_L32_Y0.099490.910
20_D119_L0.099460.909
96_P100_R0.099150.906
115_P119_L0.098730.903
57_Q96_P0.098570.901
26_P32_Y0.098530.901
109_V129_G0.098010.896
5_A115_P0.097940.895
29_D143_R0.097830.894
20_D118_R0.097820.894
57_Q98_R0.097490.891
91_Y143_R0.097410.891
4_L8_L0.097350.890
126_E129_G0.096840.885
8_L68_C0.096210.880
83_S110_S0.0960.878
90_L133_L0.095890.877
91_Y102_E0.095790.876
28_G32_Y0.095340.872
128_T132_V0.094450.863
82_F103_G0.094140.861
94_E98_R0.093950.859
86_L103_G0.093450.854
87_Q95_P0.09330.853
39_F76_V0.093050.851
36_M44_F0.093040.851
70_L99_T0.093040.851
94_E100_R0.092940.850
27_L138_R0.092720.848
117_F145_L0.092290.844
9_S83_S0.092280.844
58_D89_S0.09220.843
7_Y82_F0.091970.841
125_L139_Q0.091940.841
84_L105_A0.091090.833
36_M58_D0.090690.829
36_M109_V0.090470.827
121_P129_G0.090350.826
5_A136_I0.090280.825
59_D71_R0.089810.821
28_G133_L0.089620.819
30_N124_L0.089590.819
87_Q106_D0.089510.818
72_G82_F0.089460.818
41_F103_G0.089360.817
92_P95_P0.088960.813
45_E104_D0.088720.811
58_D69_E0.088370.808
125_L128_T0.088150.806
27_L58_D0.087960.804
14_W21_P0.087390.799
21_P43_G0.087330.798
26_P108_S0.087050.796
38_P118_R0.086640.792
76_V82_F0.086520.791
138_R144_F0.086440.790
29_D109_V0.086360.790
40_Q85_D0.086130.787
89_S106_D0.086120.787
43_G118_R0.085890.785
9_S59_D0.085740.784
39_F126_E0.085480.781
107_L137_L0.085170.779
14_W38_P0.085130.778
36_M128_T0.085110.778
96_P145_L0.08510.778
97_G100_R0.08510.778
47_E98_R0.085060.778
46_V107_L0.085050.778
6_E23_R0.084950.777
70_L85_D0.084620.774
41_F84_L0.084610.774
21_P140_I0.084470.772
27_L74_P0.084280.770
59_D95_P0.084260.770
54_V129_G0.084050.768
82_F121_P0.083890.767
35_K120_L0.083810.766
110_S127_S0.083480.763
102_E138_R0.083360.762
3_P10_D0.083250.761
35_K119_L0.083030.759
138_R143_R0.08280.757
123_S127_S0.082740.756
89_S139_Q0.082570.755
116_P120_L0.082070.750
105_A133_L0.082060.750
18_L74_P0.081960.749
69_E75_L0.081710.747
7_Y133_L0.081680.747
33_R86_L0.081650.746
101_L140_I0.081550.746
71_R100_R0.08150.745
4_L121_P0.081420.744
14_W24_I0.081110.742
16_S90_L0.081070.741
20_D67_D0.081010.741
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
2pcsA0.911499.30.587
2ns9A0.835499.20.609
3p9vA0.8924990.657
1t17A0.810198.60.709
3ggnA0.860898.60.709
2qpvA0.746898.20.743
2d4rA0.822898.10.751
2m47A0.854497.70.777
2le1A0.854497.60.782
3f08A0.822897.40.792
If you are interested in a protein containing this domain,
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