GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
TILa - TILa domain
Pfam: PF12714 (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: CL0451
Length: 56
Sequences: 348
Seq/Len: 6.21
HH_delta: 0.625 (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
21_C46_C0.398992.901
25_C35_C0.360582.622
5_Y33_V0.348822.536
17_W38_S0.329832.398
16_W33_V0.282972.058
48_I53_R0.220461.603
1_G9_Y0.200711.459
10_Y16_W0.194461.414
16_W38_S0.186631.357
47_Q56_Y0.18431.340
12_P29_P0.182251.325
41_P44_E0.168051.222
51_G55_C0.165311.202
20_D53_R0.16221.179
29_P32_Q0.158791.155
43_G54_G0.155841.133
46_C55_C0.154771.125
9_Y51_G0.153271.114
21_C27_C0.148781.082
15_S24_R0.144991.054
36_Q43_G0.144261.049
11_P42_P0.140861.024
32_Q37_P0.138121.004
6_N45_V0.136990.996
12_P28_Q0.136890.995
35_C40_C0.135330.984
26_T50_N0.13360.971
24_R38_S0.13330.969
15_S22_T0.131370.955
34_Q45_V0.129210.940
15_S19_D0.128180.932
26_T47_Q0.127350.926
6_N32_Q0.127150.925
33_V41_P0.126970.923
29_P36_Q0.126840.922
21_C55_C0.125130.910
27_C35_C0.124870.908
49_Q56_Y0.123140.895
15_S26_T0.122440.890
3_T37_P0.119610.870
42_P47_Q0.119140.866
6_N18_T0.118980.865
48_I52_V0.117110.852
23_Q39_S0.116960.850
23_Q37_P0.114420.832
25_C51_G0.114030.829
6_N23_Q0.113560.826
19_D22_T0.113060.822
40_C46_C0.112630.819
19_D32_Q0.111570.811
7_G10_Y0.111410.810
10_Y26_T0.111380.810
8_R14_E0.109950.799
13_G27_C0.10970.798
36_Q47_Q0.107930.785
7_G31_G0.106430.774
23_Q32_Q0.106070.771
52_V56_Y0.105660.768
32_Q49_Q0.105640.768
32_Q41_P0.105360.766
22_T46_C0.105360.766
3_T9_Y0.105330.766
37_P45_V0.105090.764
5_Y29_P0.104780.762
2_C7_G0.103940.756
8_R43_G0.103580.753
40_C51_G0.103470.752
29_P49_Q0.103470.752
3_T20_D0.101170.736
9_Y35_C0.099920.727
31_G34_Q0.098960.720
37_P54_G0.098870.719
28_Q31_G0.098630.717
13_G50_N0.097010.705
40_C55_C0.095670.696
21_C35_C0.094210.685
12_P39_S0.094030.684
3_T42_P0.094020.684
15_S31_G0.093440.679
19_D37_P0.092710.674
47_Q53_R0.092660.674
24_R30_N0.091980.669
13_G38_S0.091850.668
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
1u5mA0.946496.50.625
3ix0A0.964395.50.659
1xhhA0.964395.50.66
3bk3C0.910789.40.726
2cg7A0.6607880.733
2rl0A0.946482.70.75
1o9aA0.964382.60.751
2ec3A0.803674.90.768
3ejhA0.892967.50.78
2xttA0.607167.20.78
If you are interested in a protein containing this domain,
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