GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
IBN_N - Importin-beta N-terminal domain
Pfam: PF03810 (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: CL0020
Length: 77
Sequences: 1876
Seq/Len: 24.36
HH_delta: 0.129 (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
35_L39_L0.523362.207
61_E64_K0.483272.038
65_E69_S0.483062.037
20_L70_Q0.47582.006
23_L37_A0.449891.897
2_E6_K0.41931.768
3_Q7_Q0.406341.713
24_S74_L0.396461.672
38_I41_K0.393241.658
14_G63_E0.391031.649
66_Q70_Q0.367541.550
48_W64_K0.361231.523
16_W43_L0.331081.396
62_E66_Q0.324351.368
3_Q6_K0.309961.307
66_Q69_S0.306521.293
7_Q10_K0.303541.280
6_K9_Q0.293281.237
70_Q73_Q0.286211.207
21_Q70_Q0.286191.207
15_F39_L0.282161.190
1_A5_L0.274871.159
69_S73_Q0.273351.153
47_N58_Q0.266951.126
8_F35_L0.257391.085
16_W22_I0.25591.079
9_Q46_K0.253011.067
15_F19_L0.251481.060
61_E65_E0.249991.054
4_Q7_Q0.247291.043
8_F15_F0.245981.037
38_I49_S0.245491.035
23_L36_A0.243751.028
25_S73_Q0.240221.013
37_A41_K0.240041.012
35_L42_N0.234830.990
73_Q76_L0.233760.986
19_L38_I0.23240.980
44_I48_W0.232070.979
21_Q66_Q0.230580.972
9_Q43_L0.229960.970
59_L64_K0.229910.969
11_Q14_G0.229520.968
31_E44_I0.224650.947
9_Q39_L0.222960.940
19_L33_R0.221760.935
17_Q21_Q0.220840.931
58_Q76_L0.218860.923
26_N73_Q0.21420.903
32_V35_L0.214070.903
31_E34_Q0.213730.901
17_Q63_E0.21130.891
15_F35_L0.208620.880
19_L36_A0.208320.878
9_Q15_F0.208070.877
65_E68_K0.207940.877
16_W67_I0.207380.874
60_P63_E0.204280.861
17_Q66_Q0.203380.858
34_Q39_L0.202160.852
37_A40_L0.201610.850
62_E73_Q0.200870.847
19_L34_Q0.199710.842
29_D33_R0.196440.828
39_L67_I0.196090.827
29_D35_L0.193360.815
9_Q38_I0.19260.812
13_P60_P0.18990.801
9_Q42_N0.188210.794
38_I42_N0.186660.787
43_L72_L0.186160.785
26_N69_S0.184550.778
24_S47_N0.181360.765
1_A8_F0.180590.762
33_R38_I0.180430.761
37_A43_L0.180160.760
22_I28_Q0.178450.752
11_Q60_P0.171340.723
34_Q75_L0.168960.712
7_Q31_E0.167810.708
20_L67_I0.165660.699
2_E38_I0.165480.698
24_S71_L0.164570.694
63_E69_S0.163830.691
6_K58_Q0.16370.690
4_Q31_E0.16290.687
33_R41_K0.161010.679
24_S30_P0.160150.675
42_N45_K0.159360.672
19_L41_K0.15930.672
39_L76_L0.158620.669
9_Q35_L0.158310.668
43_L47_N0.157710.665
14_G60_P0.157330.663
11_Q71_L0.15720.663
62_E65_E0.156820.661
2_E44_I0.156790.661
43_L75_L0.15520.654
44_I61_E0.153860.649
46_K64_K0.152410.643
9_Q34_Q0.151380.638
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
1wa5C0.96199.20.129
4fddA0.8831990.184
3m1iC0.8701990.188
2x19B0.8701990.192
2x1gF0.8701990.2
3a6pA0.883198.90.217
4hatC0.870198.90.222
1ibrB198.90.224
4fgvA0.870198.90.231
2bptA198.90.233

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