GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
KTSC - KTSC domain
Pfam: PF13619 (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. )
Length: 60
Sequences: 331
Seq/Len: 5.52
HH_delta: 0.834 (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
37_V50_F0.400092.688
40_A50_F0.292811.967
19_E29_R0.291031.955
8_S19_E0.248211.667
48_G56_K0.246951.659
9_V41_L0.236811.591
37_V59_Y0.234421.575
18_L55_I0.222491.495
51_F56_K0.211561.421
38_Y42_L0.200061.344
6_I51_F0.193891.302
21_E29_R0.19121.284
52_N56_K0.188951.269
48_G52_N0.185741.248
34_P37_V0.184761.241
10_G21_E0.183631.234
3_S48_G0.180861.215
2_S14_E0.173621.166
38_Y54_N0.170441.145
35_P39_E0.162791.094
8_S21_E0.161771.087
22_F48_G0.161451.085
18_L30_Y0.159551.072
22_F28_Y0.159531.072
46_S56_K0.153081.028
15_T38_Y0.152161.022
28_Y48_G0.150021.008
18_L50_F0.149481.004
13_P26_S0.149141.002
3_S56_K0.148220.996
11_Y37_V0.145160.975
6_I47_K0.14510.975
2_S15_T0.14350.964
51_F58_R0.14330.963
8_S29_R0.14210.955
18_L31_F0.140030.941
11_Y34_P0.138340.929
45_P58_R0.138170.928
7_R55_I0.137550.924
21_E27_V0.135270.909
22_F51_F0.133510.897
49_R53_R0.133230.895
2_S45_P0.133140.894
5_N56_K0.132770.892
2_S38_Y0.131740.885
29_R53_R0.130510.877
20_V32_G0.128860.866
43_N54_N0.128240.861
4_S56_K0.126040.847
10_G38_Y0.125970.846
6_I41_L0.125530.843
23_K36_E0.124670.837
14_E31_F0.124390.836
24_S43_N0.123910.832
45_P59_Y0.123440.829
33_V37_V0.123410.829
23_K52_N0.123180.827
4_S48_G0.122850.825
6_I30_Y0.122640.824
34_P41_L0.122020.820
14_E35_P0.121480.816
23_K45_P0.119080.800
2_S8_S0.118780.798
10_G56_K0.11870.797
17_T43_N0.118380.795
8_S27_V0.117910.792
23_K31_F0.11760.790
11_Y16_R0.117170.787
7_R32_G0.116030.779
44_A51_F0.11590.779
21_E59_Y0.115840.778
41_L56_K0.115540.776
9_V24_S0.115260.774
6_I38_Y0.115010.773
16_R31_F0.11370.764
24_S47_K0.11270.757
51_F57_G0.111280.748
50_F54_N0.110880.745
17_T22_F0.110.739
16_R36_E0.109890.738
4_S20_V0.108910.732
22_F46_S0.108710.730
5_N44_A0.107550.722
32_G53_R0.107270.721
2_S35_P0.105580.709
4_S28_Y0.105370.708
13_P35_P0.103480.695
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
2x8nA0.933349.10.834
3k8rA0.933344.50.838
4khbD0.966736.60.845
3f5rA0.966734.60.847
3fssA0.820.70.862
3em5A0.9833190.864
2odbB0.518.70.865
3s5jB0.918.20.866
1ew4A0.9517.90.866
2ov2I0.517.50.866
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