GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Glyco_hydro_42C - Beta-galactosidase C-terminal domain
Pfam: PF08533 (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: CL0369
Length: 58
Sequences: 4110
Seq/Len: 70.86
HH_delta: 0.091 (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
18_L53_V1.359662.952
5_T16_F1.336992.903
6_V13_R1.316892.859
49_P52_G1.198052.601
12_G57_K1.151262.499
8_E13_R0.898631.951
35_D38_T0.887251.926
35_D54_R0.844091.833
26_T47_T0.829971.802
4_V17_L0.829131.800
6_V15_L0.71121.544
16_F55_V0.696541.512
24_P47_T0.692821.504
26_T45_G0.686821.491
21_S25_Q0.683751.484
14_Y36_L0.681591.480
35_D39_G0.680061.476
24_P49_P0.678251.473
20_F51_Y0.6721.459
37_L53_V0.602961.309
9_N12_G0.589291.279
21_S51_Y0.576191.251
14_Y57_K0.571261.240
28_T45_G0.542131.177
33_Y56_L0.495311.075
40_E49_P0.480391.043
34_T57_K0.475231.032
18_L55_V0.472891.027
48_L52_G0.451960.981
8_E11_G0.44310.962
35_D42_V0.429520.933
20_F55_V0.409150.888
32_S41_T0.397290.863
17_L48_L0.383860.833
20_F53_V0.377440.819
42_V47_T0.369610.802
22_D51_Y0.366940.797
35_D56_L0.358990.779
26_T46_L0.35340.767
14_Y18_L0.345940.751
17_L27_V0.339770.738
25_Q28_T0.337460.733
22_D50_P0.325830.707
7_R18_L0.320880.697
5_T18_L0.319060.693
17_L54_R0.309220.671
19_N24_P0.306150.665
4_V15_L0.303420.659
36_L57_K0.300680.653
5_T53_V0.300650.653
20_F48_L0.296050.643
17_L56_L0.287170.623
27_V44_G0.285780.620
48_L51_Y0.284080.617
38_T52_G0.278120.604
35_D40_E0.278060.604
7_R53_V0.276110.599
42_V56_L0.275330.598
43_S47_T0.265440.576
13_R33_Y0.264420.574
27_V46_L0.260720.566
38_T42_V0.26050.566
23_E50_P0.254310.552
28_T31_E0.253740.551
5_T20_F0.248630.540
14_Y55_V0.247690.538
26_T43_S0.245170.532
4_V56_L0.244040.530
46_L56_L0.242170.526
32_S44_G0.238910.519
37_L55_V0.23860.518
44_G47_T0.236930.514
32_S43_S0.234340.509
14_Y51_Y0.233670.507
42_V49_P0.229850.499
41_T47_T0.228810.497
23_E39_G0.228790.497
39_G53_V0.226820.492
22_D26_T0.226640.492
5_T12_G0.224080.486
4_V18_L0.223520.485
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
4aieA1980.091
3ucqA197.90.118
2ze0A197.70.182
1uokA197.60.187
2zicA197.60.194
3ttyA197.60.204
1m53A197.50.207
3k8kA197.50.209
3aj7A197.50.218
1zjaA197.40.241

Page generated in 0.0123 seconds.