GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Fis1_TPR_C - Fis1 C-terminal tetratricopeptide repeat
Pfam: PF14853 (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: 53
Sequences: 36920
Seq/Len: 696.6
HH_delta: -0.148 (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_D41_K4.516062.434
4_L23_Y4.317622.327
8_A24_C4.297722.316
16_E19_K4.176332.251
7_L23_Y4.078622.198
11_H19_K3.269191.762
11_H23_Y3.202491.726
24_C40_L2.998531.616
34_N37_A2.809181.514
28_L38_Q2.785331.501
27_L37_A2.51561.356
21_R25_D2.440711.315
42_E45_E2.17521.172
21_R45_E2.148651.158
9_I40_L2.137291.152
4_L26_A2.117071.141
10_G14_L2.112841.139
28_L37_A2.110861.138
21_R41_K2.063311.112
11_H16_E2.047411.103
7_L11_H2.045511.102
31_E34_N2.002331.079
38_Q42_E1.971881.063
21_R48_I1.951791.052
41_K45_E1.947471.050
39_S43_L1.871961.009
5_Y40_L1.857791.001
26_A29_E1.752170.944
26_A30_I1.737110.936
5_Y9_I1.669350.900
17_Y47_K1.635170.881
18_E48_I1.598810.862
5_Y37_A1.594190.859
42_E46_D1.574270.848
12_Y47_K1.553410.837
17_Y44_I1.544850.833
21_R44_I1.536560.828
40_L43_L1.507940.813
35_R38_Q1.503920.811
12_Y20_A1.495590.806
12_Y40_L1.487170.801
12_Y44_I1.475860.795
9_I12_Y1.425560.768
12_Y43_L1.414640.762
4_L27_L1.401630.755
5_Y34_N1.382250.745
19_K22_R1.360340.733
23_Y26_A1.345530.725
12_Y17_Y1.336780.720
39_S42_E1.331050.717
4_L30_I1.325010.714
9_I13_K1.306170.704
24_C44_I1.228670.662
8_A27_L1.222040.659
44_I48_I1.196530.645
18_E21_R1.179170.635
43_L47_K1.171270.631
17_Y48_I1.10240.594
6_Y9_I1.097190.591
20_A44_I1.096370.591
25_D45_E1.083560.584
6_Y10_G1.081050.583
3_C7_L1.079330.582
35_R42_E1.066010.575
27_L30_I1.056180.569
3_C6_Y1.054720.568
43_L46_D1.051430.567
28_L41_K1.026890.553
22_R26_A0.974610.525
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
4i2zA197.6-0.148
4gywA197.6-0.147
3gyzA197.5-0.131
4gywA197.4-0.112
3vtxA197.4-0.107
4ga2A197.3-0.09
4houA197.2-0.079
3gyzA197.2-0.079
4gcnA197.2-0.076
2pziA197.2-0.065

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