GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DivIC - Septum formation initiator
Pfam: PF04977 (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: CL0225
Length: 80
Sequences: 2243
Seq/Len: 28.04
HH_delta: 0.782 (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
56_Y60_V0.580532.094
61_A67_M0.528691.907
59_K63_E0.522711.886
60_V64_K0.517491.867
49_R53_D0.501711.810
34_E37_K0.486251.754
58_E69_K0.456771.648
33_I37_K0.443491.600
32_E35_E0.423751.529
36_L39_E0.418991.512
25_E28_E0.415241.498
44_K48_E0.406511.467
37_K41_E0.403961.457
26_I30_Q0.398281.437
58_E62_R0.398051.436
12_G15_G0.386011.393
16_Y19_Y0.385531.391
35_E38_K0.380981.374
38_K41_E0.368661.330
46_E49_R0.364431.315
45_E49_R0.353391.275
55_D58_E0.343691.240
43_L46_E0.34351.239
39_E42_E0.339391.224
68_V74_V0.333151.202
27_A31_K0.320841.157
36_L40_N0.319571.153
29_L33_I0.318021.147
25_E29_L0.314521.135
27_A30_Q0.309781.118
9_L13_I0.299261.080
53_D56_Y0.297791.074
65_L68_V0.295951.068
17_S20_Y0.295741.067
6_V10_V0.290031.046
13_I16_Y0.289411.044
40_N47_I0.288571.041
17_S21_Q0.288551.041
29_L32_E0.28831.040
22_L26_I0.28561.030
69_K72_E0.283411.022
62_R69_K0.276010.996
8_F12_G0.275620.994
23_N26_I0.275350.993
62_R72_E0.272610.983
18_R21_Q0.271670.980
30_Q34_E0.269130.971
34_E38_K0.264280.953
49_R56_Y0.259920.938
38_K42_E0.258780.934
15_G19_Y0.258250.932
23_N27_A0.255160.921
32_E36_L0.250810.905
58_E67_M0.250680.904
20_Y23_N0.246190.888
37_K63_E0.245380.885
42_E46_E0.245080.884
18_R22_L0.243090.877
27_A35_E0.240270.867
47_I76_K0.239010.862
56_Y59_K0.238050.859
28_E31_K0.23730.856
48_E52_N0.233460.842
8_F17_S0.231040.834
14_S26_I0.230330.831
60_V63_E0.228340.824
11_F15_G0.2280.823
15_G18_R0.227960.822
26_I29_L0.227370.820
35_E39_E0.226530.817
47_I50_L0.221920.801
41_E44_K0.217760.786
33_I40_N0.216670.782
29_L36_L0.213420.770
24_Q27_A0.212140.765
18_R32_E0.211330.762
18_R64_K0.208650.753
26_I33_I0.207960.750
66_G76_K0.205750.742
16_Y21_Q0.204890.739
8_F15_G0.204560.738
21_Q48_E0.203930.736
12_G16_Y0.203670.735
57_I61_A0.202880.732
73_I76_K0.200890.725
11_F14_S0.19870.717
43_L65_L0.198190.715
50_L56_Y0.196040.707
7_I11_F0.195360.705
19_Y67_M0.192220.693
31_K35_E0.191590.691
40_N44_K0.19040.687
52_N56_Y0.18880.681
14_S18_R0.187410.676
24_Q28_E0.187390.676
7_I10_V0.181120.653
46_E76_K0.18110.653
19_Y47_I0.178110.643
59_K68_V0.177780.641
30_Q33_I0.175440.633
13_I20_Y0.1750.631
45_E48_E0.174910.631
47_I75_F0.173590.626
16_Y52_N0.172760.623
5_L10_V0.1720.621
50_L57_I0.171820.620
57_I60_V0.170590.615
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
4dznA0.412561.80.782
4iffA0.662559.70.785
2zqmA0.762547.90.799
4etpA0.8125470.8
1fxkA0.742.90.805
2oa5A0.612531.30.818
2ve7C0.962528.30.822
1a93B0.42527.80.822
3swkA0.727.60.822
2azeB0.787527.20.823
If you are interested in a protein containing this domain,
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