GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
CBM_2 - Cellulose binding domain
Pfam: PF00553 (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: CL0203
Length: 101
Sequences: 1173
Seq/Len: 11.61
HH_delta: -0.049 (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
50_A61_V1.111974.142
16_Q81_Q1.012553.772
71_A74_G0.740582.759
47_S52_V0.647412.412
51_T64_P0.635872.369
63_N68_G0.61592.294
20_T77_T0.581142.165
48_W79_G0.550312.050
37_T58_T0.540982.015
64_P67_N0.522771.947
31_G63_N0.51951.935
15_F82_A0.511511.905
18_E77_T0.487761.817
35_T58_T0.458921.709
46_S81_Q0.456981.702
29_I70_I0.441351.644
19_V78_F0.426931.590
6_T18_E0.426521.589
9_N16_Q0.40691.516
17_G80_F0.388131.446
33_T62_T0.38111.420
70_I76_V0.369181.375
8_T18_E0.360031.341
26_S72_P0.343561.280
84_G87_S0.342871.277
52_V78_F0.341541.272
7_V10_S0.340611.269
30_N68_G0.335631.250
13_G84_G0.330631.232
11_W48_W0.324611.209
30_N69_T0.324341.208
70_I74_G0.320811.195
47_S61_V0.31851.186
10_S13_G0.317521.183
2_T24_N0.316451.179
84_G88_S0.316331.178
10_S84_G0.310181.155
10_S88_S0.301141.122
24_N72_P0.300841.121
47_S50_A0.300031.118
65_S68_G0.294371.097
11_W79_G0.290881.084
51_T62_T0.281051.047
5_Y80_F0.279271.040
44_I47_S0.271431.011
6_T20_T0.270741.009
38_F41_G0.265040.987
42_Q88_S0.264720.986
20_T75_S0.262760.979
4_T22_T0.261740.975
43_T83_S0.258240.962
32_W67_N0.256590.956
54_Q57_N0.246390.918
8_T16_Q0.245670.915
12_G84_G0.241920.901
67_N76_V0.241530.900
3_V34_V0.238880.890
36_F78_F0.236250.880
27_S69_T0.2350.875
2_T22_T0.234220.872
55_S60_T0.232380.866
50_A78_F0.230280.858
38_F42_Q0.22730.847
54_Q59_V0.226540.844
23_N72_P0.223840.834
5_Y15_F0.223280.832
11_W14_G0.219220.817
23_N70_I0.21760.811
21_V34_V0.215610.803
33_T60_T0.209260.779
38_F88_S0.207880.774
27_S72_P0.207050.771
17_G82_A0.202420.754
36_F52_V0.201360.750
34_V78_F0.198550.740
63_N67_N0.198050.738
31_G68_G0.193170.720
47_S78_F0.192040.715
63_N78_F0.190380.709
36_F61_V0.190220.709
5_Y17_G0.187140.697
21_V70_I0.184520.687
57_N65_S0.183830.685
49_N78_F0.180060.671
43_T60_T0.179750.670
3_V36_F0.177290.660
46_S69_T0.176710.658
43_T54_Q0.174940.652
41_G84_G0.172080.641
52_V59_V0.16910.630
61_V64_P0.159610.595
56_G59_V0.157140.585
36_F59_V0.157050.585
45_T83_S0.154050.574
18_E49_N0.153490.572
66_W76_V0.153260.571
34_V76_V0.152480.568
25_G28_P0.152430.568
35_T60_T0.152360.568
27_S62_T0.151230.563
42_Q59_V0.150550.561
15_F42_Q0.150320.560
2_T62_T0.150170.559
28_P72_P0.14810.552
37_T42_Q0.147280.549
45_T81_Q0.145440.542
38_F82_A0.145220.541
28_P62_T0.143920.536
23_N75_S0.143390.534
53_S62_T0.143170.533
42_Q54_Q0.14240.530
18_E81_Q0.142370.530
64_P76_V0.141650.528
24_N27_S0.141540.527
41_G57_N0.139920.521
49_N79_G0.139840.521
38_F54_Q0.13980.521
23_N74_G0.139270.519
36_F56_G0.139250.519
9_N49_N0.138870.517
7_V17_G0.138780.517
4_T20_T0.138620.516
5_Y36_F0.138390.516
52_V61_V0.137750.513
44_I59_V0.137570.512
3_V42_Q0.137510.512
15_F32_W0.136170.507
36_F39_P0.135610.505
21_V29_I0.135080.503
19_V54_Q0.134410.501
26_S82_A0.133870.499
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
3icgA199.9-0.049
3ndzE199.9-0.031
1exgA0.990199.90.025
2cwrA0.920899.70.246
1e5bA0.811999.50.319
1hehC0.811999.50.348
1c7sA0.950596.50.742
2x3cA0.950556.50.858
3isyA0.8416340.875
2wnxA132.70.876

Page generated in 0.0269 seconds.