GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
BRCT - BRCA1 C Terminus (BRCT) domain
Pfam: PF00533 (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: CL0459
Length: 78
Sequences: 5478
Seq/Len: 70.23
HH_delta: 0.005 (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
28_I33_G2.159674.305
70_S73_W1.444022.878
13_I28_I1.206222.404
9_C44_T1.090662.174
10_T34_T1.011032.015
45_H69_V0.976271.946
25_E29_K0.960571.915
58_Y62_I0.956721.907
69_V73_W0.946841.887
11_F45_H0.925591.845
12_C43_T0.914561.823
36_S43_T0.859111.712
48_V68_I0.799491.594
26_Q30_K0.794771.584
22_E25_E0.781.555
13_I24_L0.745711.486
27_L31_H0.743121.481
59_K63_A0.7391.473
11_F28_I0.738391.472
5_I31_H0.723681.442
12_C46_V0.693841.383
6_F77_C0.683691.363
73_W77_C0.657081.310
25_E37_N0.64681.289
20_E23_E0.629291.254
72_D76_D0.617611.231
25_E35_V0.61251.221
59_K62_I0.592081.180
13_I35_V0.582341.161
9_C45_H0.580351.157
69_V77_C0.571631.139
10_T36_S0.564331.125
55_T58_Y0.558061.112
28_I74_I0.53051.057
55_T61_A0.529051.054
23_E26_Q0.525281.047
60_A64_N0.518721.034
27_L30_K0.505321.007
39_F66_I0.503981.005
18_S71_P0.497310.991
36_S40_S0.478090.953
73_W76_D0.473560.944
54_R58_Y0.471930.941
45_H67_P0.471130.939
19_D24_L0.468420.934
55_T59_K0.461720.920
40_S43_T0.43850.874
72_D75_E0.435460.868
39_F43_T0.429950.857
19_D75_E0.421730.841
60_A63_A0.418880.835
13_I74_I0.416810.831
27_L75_E0.415680.829
67_P73_W0.405540.808
61_A65_G0.403620.804
24_L74_I0.397920.793
23_E27_L0.387880.773
6_F31_H0.383330.764
12_C39_F0.374980.747
13_I47_I0.369530.737
6_F9_C0.369230.736
56_K60_A0.361780.721
12_C35_V0.359030.716
17_D50_N0.358850.715
61_A68_I0.358770.715
10_T44_T0.349570.697
54_R59_K0.348550.695
46_V61_A0.334240.666
71_P75_E0.33060.659
18_S75_E0.330320.658
6_F33_G0.324740.647
21_R25_E0.318420.635
27_L74_I0.31720.632
6_F73_W0.317180.632
11_F33_G0.315250.628
24_L27_L0.315230.628
16_F71_P0.312630.623
41_K64_N0.311850.622
11_F74_I0.311570.621
74_I77_C0.311530.621
51_P54_R0.310490.619
6_F74_I0.309660.617
46_V57_K0.306540.611
39_F64_N0.293130.584
7_E30_K0.286710.571
16_F49_G0.283080.564
16_F20_E0.279750.558
16_F24_L0.279460.557
9_C67_P0.279220.557
11_F47_I0.27720.553
10_T42_K0.277120.552
56_K59_K0.275910.550
20_E49_G0.274780.548
58_Y61_A0.270670.539
11_F73_W0.270610.539
45_H77_C0.270160.538
58_Y68_I0.268140.534
13_I25_E0.264960.528
39_F61_A0.263540.525
15_G20_E0.262450.523
45_H73_W0.25980.518
10_T43_T0.258730.516
5_I77_C0.256720.512
54_R63_A0.254630.508
55_T65_G0.252130.503
43_T46_V0.252020.502
47_I74_I0.249390.497
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
3l46A0.974499.40.005
2couA0.974499.40.034
3olcX0.974499.30.05
2d8mA0.974499.30.064
3l3eA199.30.077
3ef1A0.974499.30.086
4id3A0.948799.20.102
3ef0A0.974499.20.104
2ebwA0.948799.20.108
3olcX0.974499.20.109

Page generated in 0.4086 seconds.