GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Abhydro_lipase - Partial alphabeta-hydrolase lipase region
Pfam: PF04083 (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: CL0028
Length: 63
Sequences: 998
Seq/Len: 15.84
HH_delta: 0.51 (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
54_Q58_D0.746533.196
14_E26_T0.584312.502
28_H56_S0.539962.312
18_T24_I0.5172.214
11_P31_P0.468192.005
2_P28_H0.382421.637
5_I12_C0.379321.624
16_E24_I0.363291.555
11_P32_P0.351731.506
55_S58_D0.337191.444
4_L8_H0.330741.416
13_E29_R0.326591.398
4_L57_D0.302771.296
51_G56_S0.292371.252
30_I33_G0.287941.233
17_V27_L0.285081.221
6_E12_C0.28171.206
2_P12_C0.280051.199
5_I8_H0.269241.153
11_P33_G0.265991.139
28_H57_D0.251831.078
57_D61_L0.244351.046
32_P42_K0.243891.044
32_P43_K0.243121.041
4_L54_Q0.2431.040
7_K62_N0.240761.031
42_K45_P0.238261.020
12_C28_H0.235131.007
4_L7_K0.233290.999
9_G22_G0.228190.977
22_G27_L0.223010.955
5_I60_V0.213070.912
3_E58_D0.210740.902
18_T23_Y0.209960.899
2_P14_E0.208580.893
15_H61_L0.207240.887
45_P56_S0.201570.863
34_K41_K0.199270.853
8_H34_K0.198310.849
47_L54_Q0.197930.847
16_E26_T0.197060.844
14_E41_K0.195990.839
6_E18_T0.194990.835
10_Y29_R0.194640.833
10_Y16_E0.19180.821
26_T41_K0.188510.807
58_D62_N0.185730.795
18_T22_G0.185610.795
7_K47_L0.184030.788
40_N44_P0.182130.780
14_E53_L0.181690.778
11_P30_I0.181650.778
50_H59_W0.180790.774
2_P40_N0.180150.771
49_Q59_W0.179590.769
23_Y31_P0.177820.761
2_P48_L0.177810.761
6_E11_P0.177460.760
58_D61_L0.176730.757
44_P57_D0.175890.753
19_T29_R0.174760.748
30_I49_Q0.174050.745
2_P16_E0.172780.740
2_P55_S0.172180.737
47_L61_L0.171160.733
47_L53_L0.171140.733
5_I9_G0.169480.726
8_H62_N0.167450.717
27_L46_V0.164540.704
3_E57_D0.163570.700
41_K46_V0.16350.700
15_H28_H0.162150.694
25_L41_K0.161270.690
24_I53_L0.160730.688
4_L62_N0.16020.686
3_E22_G0.158380.678
3_E6_E0.154960.663
20_E24_I0.154050.660
2_P6_E0.150280.643
56_S60_V0.148470.636
45_P49_Q0.148350.635
14_E28_H0.148020.634
13_E31_P0.147520.632
49_Q53_L0.146130.626
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
1k8qA198.40.51
3i1iA0.984196.50.689
2i3dA0.888996.10.703
3fnbA0.888996.10.703
3hjuA0.9048960.706
2vatA0.984195.50.718
3pe6A0.904895.50.719
3g8yA0.936595.40.72
1thtA0.87395.40.72
3f67A0.825494.80.73
If you are interested in a protein containing this domain,
drop us a note and we'll try to predict the structure for you.

Page generated in 0.0329 seconds.