GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Ank_5 - Ankyrin repeats (many copies)
Pfam: PF13857 (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: CL0465
Length: 56
Sequences: 43280
Seq/Len: 772.86
HH_delta: -0.294 (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
12_Q44_A3.100932.713
34_L38_N2.724512.383
17_N46_D2.477842.168
50_Q55_Y2.099351.837
50_Q54_H2.01621.764
17_N22_W1.933171.691
20_L32_V1.83491.605
28_H31_V1.826271.598
21_H55_Y1.747291.529
17_N25_R1.740511.523
23_A32_V1.718491.503
51_T54_H1.693731.482
22_W25_R1.652051.445
29_S33_R1.593421.394
2_L34_L1.502431.314
21_H54_H1.501111.313
25_R55_Y1.481091.296
41_D44_A1.433441.254
21_H52_P1.404861.229
46_D50_Q1.393311.219
20_L36_L1.267881.109
24_A27_G1.259991.102
17_N21_H1.25441.097
24_A52_P1.252521.096
34_L37_Q1.240691.085
24_A32_V1.208531.057
8_D11_A1.193661.044
17_N55_Y1.192421.043
10_N41_D1.191951.043
18_T21_H1.187081.038
36_L42_P1.18461.036
45_K51_T1.172621.026
12_Q16_G1.159791.015
22_W26_Y1.148551.005
10_N44_A1.147721.004
33_R37_Q1.145821.002
2_L9_V1.138690.996
16_G47_K1.125310.984
2_L38_N1.115250.976
13_D17_N1.069210.935
19_P35_L1.038220.908
45_K49_G1.037560.908
12_Q18_T1.02540.897
18_T40_A1.010660.884
31_V34_L0.978340.856
46_D55_Y0.96830.847
21_H44_A0.958690.839
18_T44_A0.957360.838
22_W55_Y0.950970.832
3_E38_N0.94320.825
4_H7_A0.921930.807
10_N40_A0.921580.806
43_N51_T0.899280.787
43_N54_H0.864190.756
15_Y48_D0.859550.752
14_K47_K0.840290.735
23_A31_V0.827750.724
35_L40_A0.796070.696
21_H46_D0.791780.693
17_N50_Q0.778890.681
3_E37_Q0.766710.671
52_P56_A0.745030.652
11_A14_K0.716140.626
2_L5_G0.711290.622
30_E34_L0.695450.608
5_G8_D0.685630.600
13_D22_W0.672630.588
37_Q40_A0.6660.583
30_E33_R0.665970.583
9_V13_D0.661430.579
23_A35_L0.660680.578
21_H45_K0.659260.577
48_D55_Y0.643050.563
7_A10_N0.642750.562
32_V36_L0.634670.555
7_A11_A0.595630.521
42_P53_L0.580190.508
20_L52_P0.579490.507
31_V35_L0.574840.503
25_R50_Q0.568740.498
20_L40_A0.565230.494
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
3lvqE0.982198.2-0.294
1dcqA0.982198.1-0.27
4gpmA0.982198-0.266
2b0oE0.982198-0.249
4gpmA0.982197.9-0.243
1sw6A0.982197.9-0.231
3jueA0.982197.9-0.229
1ycsB0.982197.8-0.221
4hbdA0.982197.8-0.219
1s70B0.982197.8-0.213

Page generated in 0.0487 seconds.