GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF2431 - Domain of unknown function (DUF2431)
Pfam: PF10354 (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: CL0063
Length: 166
Sequences: 21994
Seq/Len: 132.49
HH_delta: 0.297 (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
25_V76_F2.005292.949
77_D116_K1.803542.652
23_N55_T1.699992.500
28_S31_S1.692032.488
115_L119_G1.677872.467
25_V57_L1.672682.459
111_A121_I1.445662.126
42_A56_V1.437782.114
110_S113_Q1.429542.102
112_S145_L1.421352.090
25_V55_T1.207921.776
28_S33_E1.203461.770
11_S24_L1.159591.705
5_E28_S1.14771.688
5_E42_A1.116141.641
31_S58_H1.057111.554
46_L54_V1.04831.541
46_L56_V1.011161.487
15_A53_G1.009711.485
138_E142_E0.963341.416
5_E11_S0.959221.410
16_R49_L0.955411.405
59_G64_K0.94941.396
11_S28_S0.927081.363
105_R109_K0.925971.362
137_E141_A0.921611.355
2_L5_E0.921131.354
43_E47_E0.900971.325
105_R139_L0.89661.318
44_E48_E0.890111.309
110_S114_L0.874451.286
79_I111_A0.860951.266
30_D33_E0.838381.233
78_R120_E0.834571.227
13_S17_A0.832641.224
12_L45_N0.83251.224
3_V62_A0.829191.219
14_L80_I0.827221.216
13_S16_R0.826481.215
139_L142_E0.818351.203
12_L46_L0.811791.194
61_D64_K0.81071.192
41_D44_E0.810611.192
79_I115_L0.808231.188
115_L121_I0.790571.162
63_T106_G0.774091.138
108_F140_A0.773681.138
28_S32_E0.754351.109
73_N113_Q0.75041.103
15_A51_E0.748781.101
105_R142_E0.74781.100
75_R116_K0.734611.080
109_K143_A0.732421.077
45_N48_E0.731531.076
12_L49_L0.730981.075
138_E141_A0.725161.066
112_S143_A0.721621.061
33_E58_H0.713231.049
106_G109_K0.708741.042
106_G110_S0.707811.041
72_K75_R0.692341.018
59_G65_L0.690561.015
11_S54_V0.683091.004
76_F79_I0.682311.003
135_N138_E0.682211.003
137_E150_K0.681481.002
15_A54_V0.680081.000
14_L18_F0.679210.999
78_R122_H0.671880.988
4_G84_P0.670370.986
107_F111_A0.663320.975
4_G81_F0.662950.975
45_N49_L0.65690.966
44_E47_E0.655090.963
7_D10_F0.643730.947
43_E46_L0.643580.946
3_V111_A0.64170.944
113_Q117_P0.636010.935
5_E56_V0.633640.932
8_F42_A0.626620.921
10_F82_N0.625650.920
139_L143_A0.622620.915
134_W138_E0.606960.892
47_E52_L0.605020.890
4_G62_A0.59070.869
73_N114_L0.586270.862
105_R143_A0.574620.845
16_R51_E0.573320.843
83_F86_V0.568860.836
81_F121_I0.566940.834
75_R114_L0.564630.830
15_A24_L0.561140.825
103_L106_G0.559770.823
10_F80_I0.558830.822
57_L65_L0.546080.803
9_S13_S0.54560.802
2_L8_F0.539940.794
18_F24_L0.536670.789
105_R138_E0.535970.788
83_F87_G0.533840.785
109_K113_Q0.525870.773
127_D130_P0.525090.772
83_F126_K0.52280.769
84_P87_G0.520310.765
81_F123_V0.514770.757
12_L51_E0.510130.750
43_E56_V0.508170.747
83_F124_T0.505590.743
28_S42_A0.50510.743
109_K142_E0.494570.727
82_N85_H0.49210.724
86_V125_L0.490970.722
9_S82_N0.490580.721
126_K129_Q0.488990.719
12_L15_A0.484830.713
28_S56_V0.482990.710
141_A144_G0.481570.708
12_L16_R0.478380.703
82_N124_T0.47570.699
80_I122_H0.474350.697
126_K130_P0.469330.690
124_T129_Q0.469050.690
65_L72_K0.465570.685
76_F114_L0.465420.684
86_V126_K0.457860.673
147_L150_K0.455880.670
111_A114_L0.454690.669
113_Q116_K0.450530.662
24_L54_V0.450270.662
55_T58_H0.449090.660
120_E148_V0.448030.659
87_G128_G0.445870.656
82_N87_G0.44520.655
85_H126_K0.443630.652
2_L24_L0.442470.651
134_W137_E0.442290.650
65_L114_L0.4390.645
81_F85_H0.438820.645
112_S144_G0.437960.644
7_D45_N0.436970.643
135_N139_L0.435780.641
11_S80_I0.429320.631
4_G10_F0.42390.623
146_V149_R0.422960.622
25_V28_S0.421520.620
5_E8_F0.420180.618
9_S124_T0.413470.608
87_G125_L0.413370.608
125_L136_I0.411080.604
10_F14_L0.406930.598
109_K112_S0.40660.598
63_T110_S0.406350.597
77_D118_D0.403360.593
2_L7_D0.402370.592
51_E54_V0.402030.591
112_S115_L0.401120.590
140_A143_A0.399570.588
5_E82_N0.395660.582
2_L11_S0.395490.582
81_F84_P0.394710.580
47_E50_R0.394610.580
3_V107_F0.389390.573
62_A84_P0.386220.568
85_H125_L0.383280.564
81_F107_F0.382740.563
79_I121_I0.382550.562
62_A65_L0.380210.559
10_F83_F0.379920.559
8_F11_S0.376210.553
115_L118_D0.375710.552
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
4gekA0.855499.60.297
2b3tA0.909699.60.313
3lpmA0.909699.60.313
3tmaA0.867599.60.324
4dcmA0.843499.60.328
3ocjA0.867599.60.33
2frnA0.819399.60.333
3v97A0.897699.60.334
3dtnA0.843499.60.336
3evzA0.891699.60.337

Page generated in 0.0502 seconds.