GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF4283 - Domain of unknown function (DUF4283)
Pfam: PF14111 (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: 153
Sequences: 753
Seq/Len: 4.92
HH_delta: 0.827 (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
126_G132_P0.198172.365
62_F71_V0.198112.364
19_L72_L0.159771.907
76_P79_F0.132731.584
30_S105_V0.125511.498
138_N142_R0.121721.453
63_E67_D0.121631.452
42_W77_W0.120621.440
70_R116_L0.120381.437
69_Q96_S0.119881.431
126_G129_I0.11981.430
118_S142_R0.117141.398
61_Q109_I0.116071.385
66_E69_Q0.111561.331
119_E123_K0.111411.330
65_E69_Q0.111061.325
107_V129_I0.110371.317
111_G115_H0.109991.313
76_P85_I0.10941.306
45_K112_L0.109031.301
89_W139_T0.10681.275
18_C23_V0.105721.262
42_W86_L0.104871.252
89_W115_H0.103981.241
130_G136_D0.10371.238
127_S132_P0.103291.233
106_W130_G0.103021.230
53_L59_L0.102811.227
62_F136_D0.102171.219
38_L41_I0.101861.216
104_P110_Y0.101811.215
63_E112_L0.101261.209
111_G117_W0.100371.198
23_V30_S0.099121.183
42_W71_V0.098671.178
83_F125_I0.096611.153
60_F80_N0.095941.145
69_Q78_N0.095161.136
70_R73_K0.095071.135
136_D139_T0.094271.125
68_R88_R0.093611.117
53_L60_F0.093541.116
79_F90_S0.092871.108
59_L111_G0.092331.102
44_L128_K0.091951.097
132_P136_D0.091761.095
108_R130_G0.091291.090
51_R91_P0.091241.089
17_L27_K0.091161.088
48_V88_R0.091081.087
112_L122_L0.090631.082
86_L112_L0.090491.080
48_V74_G0.089841.072
21_G86_L0.089471.068
67_D81_G0.089411.067
121_I125_I0.088871.061
134_E140_L0.088511.056
103_I133_I0.088211.053
16_Q27_K0.088071.051
17_L23_V0.087861.049
75_G81_G0.087751.047
114_L117_W0.087011.038
21_G60_F0.086911.037
125_I135_V0.086561.033
126_G130_G0.086551.033
48_V67_D0.086291.030
38_L90_S0.086231.029
81_G84_L0.086211.029
91_P117_W0.086131.028
117_W122_L0.085681.023
78_N109_I0.085331.018
53_L120_E0.085031.015
46_G102_H0.084631.010
37_E122_L0.08461.010
69_Q80_N0.084531.009
122_L125_I0.083050.991
20_V29_I0.08270.987
122_L139_T0.082370.983
94_N105_V0.081740.976
19_L25_S0.081720.975
50_I60_F0.081710.975
126_G135_V0.08170.975
66_E80_N0.081560.973
132_P142_R0.081360.971
106_W110_Y0.081310.970
16_Q25_S0.080670.963
87_Q95_P0.080660.963
49_K61_Q0.07990.954
116_L122_L0.079750.952
39_A117_W0.079560.950
82_H85_I0.079390.947
64_S70_R0.077670.927
109_I123_K0.077610.926
50_I53_L0.077540.925
49_K58_F0.077530.925
67_D71_V0.077430.924
115_H122_L0.077190.921
105_V115_H0.076960.918
123_K132_P0.076950.918
74_G77_W0.076220.910
34_L75_G0.075970.907
122_L140_L0.075550.902
77_W82_H0.075520.901
47_G70_R0.075510.901
112_L117_W0.075260.898
92_D95_P0.075020.895
33_A140_L0.074990.895
43_K58_F0.07440.888
80_N120_E0.074360.887
17_L80_N0.074220.886
104_P133_I0.074150.885
20_V111_G0.073790.881
100_F123_K0.073450.877
139_T142_R0.07340.876
44_L126_G0.073390.876
86_L106_W0.073370.876
34_L84_L0.073320.875
61_Q70_R0.073080.872
89_W122_L0.072990.871
35_E60_F0.072540.866
65_E88_R0.072340.863
37_E48_V0.072220.862
112_L125_I0.072150.861
39_A88_R0.072080.860
48_V120_E0.072080.860
60_F68_R0.07190.858
49_K52_D0.071880.858
33_A79_F0.071790.857
106_W122_L0.071690.856
107_V114_L0.071470.853
41_I124_A0.071230.850
127_S130_G0.071110.849
129_I132_P0.070940.847
37_E43_K0.07090.846
25_S56_N0.070670.843
45_K80_N0.070620.843
67_D70_R0.070490.841
16_Q22_R0.070460.841
35_E81_G0.070450.841
126_G140_L0.070420.840
20_V23_V0.070280.839
38_L57_L0.070190.838
40_K87_Q0.070160.837
123_K129_I0.070060.836
36_Q66_E0.069940.835
19_L71_V0.069930.835
66_E83_F0.069860.834
110_Y117_W0.069560.830
20_V93_F0.069540.830
29_I59_L0.069410.828
64_S92_D0.069230.826
75_G116_L0.069020.824
34_L86_L0.068480.817
42_W129_I0.068450.817
55_D58_F0.067950.811
35_E48_V0.067920.811
46_G63_E0.067830.810
113_P117_W0.067830.810
38_L70_R0.067710.808
34_L74_G0.067460.805
58_F62_F0.067440.805
18_C44_L0.067390.804
133_I140_L0.067180.802
63_E68_R0.067020.800
75_G127_S0.066610.795
17_L31_L0.066170.790
137_E140_L0.066120.789
18_C89_W0.066020.788
36_Q44_L0.066020.788
23_V31_L0.065820.786
21_G25_S0.065620.783
34_L37_E0.065470.781
107_V126_G0.065240.779
57_L86_L0.065150.778
114_L118_S0.064850.774
77_W85_I0.064750.773
71_V77_W0.064410.769
50_I142_R0.064360.768
61_Q67_D0.064260.767
117_W139_T0.064130.765
25_S58_F0.06410.765
45_K54_G0.063780.761
68_R86_L0.063750.761
108_R128_K0.06370.760
20_V87_Q0.063690.760
78_N83_F0.063690.760
32_S105_V0.063650.760
28_P78_N0.063540.758
126_G136_D0.063480.758
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
1l3kA0.960895.80.827
2ghpA0.986993.70.847
1fjeB0.908592.90.852
3md3A0.849792.60.853
1fxlA0.849791.60.857
2g4bA0.8627910.859
2ghpA0.895490.40.861
2yh0A0.908589.70.863
3smzA0.9673890.865
3smzA0.882488.70.866
If you are interested in a protein containing this domain,
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