GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF953 - Eukaryotic protein of unknown function (DUF953)
Pfam: PF06110 (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: CL0172
Length: 119
Sequences: 8355
Seq/Len: 70.21
HH_delta: 0.178 (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
28_G37_W1.931423.666
38_C41_C1.32312.512
20_K60_R1.2412.356
54_K114_E1.202272.282
22_L60_R1.169632.220
50_K110_E0.97411.849
101_R104_E0.95081.805
21_P95_R0.900751.710
85_L96_W0.87471.660
44_A93_L0.864341.641
47_V110_E0.841531.597
109_N112_L0.826131.568
27_T63_Y0.823951.564
66_V90_I0.823361.563
45_E63_Y0.821491.559
25_L93_L0.818071.553
26_F85_L0.797011.513
94_I104_E0.796091.511
112_L115_M0.793771.507
66_V82_D0.784011.488
110_E114_E0.771711.465
24_L96_W0.75481.433
97_E101_R0.737551.400
23_F48_V0.700771.330
28_G90_I0.700731.330
23_F93_L0.700151.329
87_L92_T0.693451.316
21_P98_T0.691471.313
49_E53_K0.666611.265
23_F95_R0.658971.251
50_K54_K0.657631.248
95_R116_F0.654371.242
25_L44_A0.637831.211
51_A114_E0.63751.210
25_L40_D0.630071.196
55_A114_E0.618391.174
37_W90_I0.606271.151
29_S65_E0.598551.136
26_F87_L0.597391.134
22_L62_V0.586861.114
47_V50_K0.583661.108
96_W101_R0.572111.086
45_E49_E0.556871.057
65_E68_D0.546321.037
25_L45_E0.544621.034
55_A61_L0.542921.031
19_G98_T0.523690.994
25_L63_Y0.522490.992
38_C46_P0.514360.976
29_S37_W0.512820.973
21_P97_E0.509790.968
111_D115_M0.508480.965
105_E116_F0.503120.955
27_T45_E0.500180.949
50_K53_K0.487280.925
40_D43_A0.485160.921
26_F64_V0.478590.908
54_K110_E0.471070.894
94_I101_R0.466190.885
26_F94_I0.464620.882
49_E63_Y0.462670.878
97_E100_E0.457040.868
28_G67_G0.456980.867
103_V116_F0.455420.865
82_D87_L0.443490.842
112_L116_F0.435280.826
52_F56_P0.431960.820
54_K58_N0.430380.817
27_T65_E0.430250.817
46_P50_K0.429110.815
104_E107_C0.417880.793
38_C90_I0.417520.793
40_D90_I0.409330.777
39_P42_V0.408520.775
108_L113_V0.407050.773
23_F61_L0.401930.763
85_L94_I0.39820.756
55_A59_A0.388210.737
51_A55_A0.387520.736
48_V61_L0.373730.709
27_T42_V0.373220.708
19_G97_E0.371210.705
42_V45_E0.368860.700
104_E116_F0.357360.678
24_L62_V0.355540.675
60_R63_Y0.352310.669
51_A110_E0.345790.656
40_D89_G0.343440.652
37_W40_D0.338730.643
92_T104_E0.331820.630
29_S43_A0.330050.627
96_W102_L0.327510.622
25_L38_C0.327170.621
66_V69_R0.325980.619
82_D86_K0.325710.618
97_E102_L0.322570.612
20_K58_N0.322230.612
22_L25_L0.319710.607
22_L96_W0.319280.606
25_L41_C0.319080.606
48_V113_V0.318140.604
29_S67_G0.317830.603
69_R81_T0.317560.603
24_L85_L0.31130.591
43_A47_V0.310810.590
23_F52_F0.310150.589
21_P59_A0.309650.588
26_F92_T0.305840.581
18_S21_P0.303910.577
108_L112_L0.303160.575
89_G106_E0.301440.572
82_D92_T0.300670.571
88_K106_E0.300110.570
23_F59_A0.297470.565
84_D88_K0.297350.564
39_P43_A0.296770.563
25_L48_V0.293010.556
37_W42_V0.290820.552
62_V66_V0.288030.547
81_T84_D0.28520.541
69_R84_D0.284950.541
103_V106_E0.28490.541
111_D114_E0.283660.538
23_F113_V0.283310.538
48_V52_F0.280380.532
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
3zzxA0.840399.60.178
2av4A0.848799.60.181
1wouA0.966499.60.218
4aj8A0.840399.60.222
3vfiA0.831999.50.246
2qgvA0.831999.50.247
3qfaC0.840399.50.248
1xflA0.857199.50.249
3qouA0.848799.50.253
1ep7A0.865599.50.258

Page generated in 0.0217 seconds.