GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
BIR - Inhibitor of Apoptosis domain
Pfam: PF00653 (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: CL0417
Length: 70
Sequences: 894
Seq/Len: 12.77
HH_delta: -0.06 (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
44_L63_S0.792923.710
58_E61_R0.479372.243
26_A56_W0.455272.130
58_E62_H0.421711.973
38_R45_E0.398751.865
26_A55_P0.368951.726
56_W60_K0.367491.719
35_D49_W0.362441.696
49_W55_P0.356871.670
39_C42_C0.351531.645
50_E58_E0.344761.613
2_L20_P0.33331.559
60_K69_V0.312411.462
3_K6_R0.290511.359
50_E53_D0.289851.356
11_H18_V0.286851.342
49_W53_D0.286511.340
1_R4_S0.285351.335
42_C59_H0.28121.316
11_H17_P0.278351.302
29_Y40_F0.244751.145
43_G65_N0.242321.134
38_R43_G0.237161.110
31_T38_R0.234541.097
37_V49_W0.232751.089
54_D57_E0.224121.049
1_R5_F0.221541.036
45_E60_K0.218031.020
22_K54_D0.217841.019
38_R62_H0.213941.001
33_T36_R0.208470.975
41_Y67_P0.204780.958
20_P24_A0.203150.950
44_L62_H0.199050.931
10_P53_D0.19860.929
18_V52_N0.198510.929
21_E25_R0.197070.922
35_D42_C0.195530.915
64_P67_P0.193630.906
23_L37_V0.191340.895
26_A40_F0.189190.885
46_L58_E0.186560.873
18_V23_L0.186420.872
43_G51_P0.178870.837
35_D39_C0.176970.828
39_C59_H0.17690.828
59_H66_C0.175860.823
10_P30_Y0.174450.816
60_K68_F0.172520.807
51_P65_N0.172410.807
41_Y69_V0.172140.805
36_R69_V0.171220.801
36_R47_D0.167980.786
9_W20_P0.16740.783
31_T36_R0.167370.783
12_S33_T0.166290.778
56_W69_V0.166120.777
36_R50_E0.165410.774
4_S17_P0.163180.763
28_F37_V0.162840.762
40_F49_W0.162630.761
2_L21_E0.160130.749
4_S29_Y0.159860.748
11_H32_G0.159380.746
31_T34_G0.159090.744
4_S69_V0.158970.744
6_R22_K0.157850.738
10_P35_D0.157390.736
48_N62_H0.157350.736
30_Y33_T0.15610.730
18_V25_R0.155260.726
43_G63_S0.154470.723
53_D58_E0.15410.721
12_S65_N0.15380.720
10_P49_W0.151190.707
5_F59_H0.150620.705
27_G39_C0.150620.705
57_E65_N0.149820.701
28_F67_P0.149520.700
32_G38_R0.14880.696
24_A60_K0.148430.694
46_L62_H0.147820.692
11_H68_F0.14590.683
21_E24_A0.144120.674
22_K38_R0.144070.674
3_K36_R0.14380.673
45_E62_H0.142020.664
50_E55_P0.141170.660
45_E51_P0.140620.658
6_R67_P0.139610.653
6_R54_D0.138260.647
32_G46_L0.136030.636
33_T65_N0.135680.635
12_S20_P0.135270.633
33_T37_V0.134940.631
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
3t6pA0.942999.9-0.06
2i3hA0.942999.9-0.052
1i4oC0.942999.9-0.048
1jd5A0.942999.9-0.048
2qraD0.942999.9-0.048
3siqA0.928699.8-0.041
2poiA0.942999.8-0.04
4hy4A0.942999.8-0.034
2vm5A0.957199.8-0.03
1se0A0.928699.8-0.03

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