GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Resolvase - Resolvase N terminal domain
Pfam: PF00239 (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: 141
Sequences: 4997
Seq/Len: 35.44
HH_delta: 0.056 (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
49_G52_E1.658473.345
35_Y56_D1.450822.926
37_D49_G1.403822.832
53_L63_I1.340992.705
120_E127_R1.10222.223
18_K22_R1.094822.208
5_I18_K1.085492.190
134_A138_R1.045662.109
94_S97_E1.021612.061
3_I21_L0.99382.005
18_K34_V0.973111.963
107_E122_R0.909311.834
19_E23_E0.895941.807
111_E115_A0.880981.777
108_L119_Y0.862821.740
85_L90_V0.861971.739
18_K36_V0.857511.730
135_A140_K0.843671.702
9_T12_Q0.8261.666
43_S121_S0.825631.665
75_P111_E0.822461.659
128_V132_M0.799451.613
125_S129_K0.798591.611
76_R80_E0.775061.563
84_Q88_K0.769241.552
23_E27_E0.755591.524
107_E118_E0.754121.521
108_L115_A0.744371.501
121_S124_I0.735281.483
2_A53_L0.727691.468
2_A56_D0.725761.464
78_L114_S0.724381.461
33_K52_E0.723231.459
118_E122_R0.717571.447
50_F81_L0.68921.390
76_R83_E0.686121.384
57_I60_G0.680221.372
103_D106_D0.659311.330
86_R107_E0.659191.330
22_R34_V0.656621.324
82_L110_L0.655531.322
2_A60_G0.649251.310
133_A137_K0.639371.290
57_I63_I0.630961.273
79_L111_E0.624721.260
65_V94_S0.617881.246
57_I90_V0.617771.246
3_I34_V0.616231.243
75_P114_S0.604611.220
75_P79_L0.587091.184
131_G135_A0.581791.174
7_V12_Q0.581571.173
45_P77_E0.581071.172
52_E56_D0.580191.170
134_A137_K0.579431.169
65_V92_L0.573191.156
129_K132_M0.571721.153
62_V93_H0.570991.152
46_E51_Q0.565111.140
35_Y53_L0.563511.137
69_D117_A0.561221.132
121_S125_S0.559981.130
62_V91_R0.551161.112
72_G78_L0.550551.111
133_A136_K0.546521.102
25_A64_V0.545331.100
16_R66_Y0.538341.086
120_E124_I0.536631.082
83_E87_K0.535771.081
132_M136_K0.514661.038
40_V48_P0.512941.035
58_E84_Q0.505931.021
54_L81_L0.496521.002
124_I128_V0.491470.991
24_Y28_N0.490290.989
22_R26_K0.487680.984
70_R73_R0.483060.974
42_G73_R0.482760.974
53_L57_I0.481420.971
5_I21_L0.477150.962
5_I14_L0.473150.954
129_K133_A0.471310.951
40_V44_K0.471030.950
5_I36_V0.469630.947
125_S128_V0.465820.940
66_Y130_R0.463320.935
108_L116_M0.461260.930
58_E88_K0.456910.922
69_D127_R0.456450.921
108_L112_I0.456290.920
50_F53_L0.447110.902
50_F71_L0.44490.897
57_I85_L0.444370.896
123_R127_R0.444180.896
119_Y123_R0.437930.883
54_L84_Q0.432270.872
36_V49_G0.432110.872
4_Y37_D0.430590.869
20_A66_Y0.429930.867
8_S12_Q0.429860.867
19_E134_A0.426870.861
24_Y93_H0.423770.855
19_E22_R0.417920.843
124_I131_G0.41610.839
112_I115_A0.416030.839
66_Y96_D0.413630.834
67_D96_D0.413470.834
71_L81_L0.410460.828
82_L92_L0.406810.821
42_G72_G0.400870.809
53_L56_D0.397630.802
15_E19_E0.397130.801
5_I34_V0.395690.798
2_A35_Y0.394460.796
104_P126_R0.388780.784
23_E26_K0.3870.781
80_E84_Q0.386530.780
20_A23_E0.385790.778
91_R102_D0.377850.762
108_L111_E0.376840.760
16_R67_D0.370070.746
35_Y49_G0.362770.732
16_R130_R0.361610.729
63_I85_L0.361480.729
72_G81_L0.361350.729
105_S108_L0.358510.723
8_S70_R0.355560.717
21_L64_V0.355080.716
68_L94_S0.353470.713
68_L117_A0.351230.708
128_V131_G0.350870.708
59_S89_G0.343970.694
2_A57_I0.343490.693
52_E55_E0.342850.692
20_A96_D0.342050.690
13_D38_I0.340850.688
55_E58_E0.340190.686
24_Y64_V0.338960.684
125_S132_M0.335590.677
76_R79_L0.335020.676
24_Y95_V0.334730.675
119_Y122_R0.333730.673
51_Q55_E0.333620.673
111_E122_R0.332020.670
109_L116_M0.331630.669
109_L113_L0.327140.660
65_V71_L0.326680.659
81_L85_L0.323410.652
37_D42_G0.32290.651
111_E114_S0.322890.651
16_R20_A0.322850.651
25_A28_N0.321090.648
21_L25_A0.32020.646
14_L36_V0.320120.646
20_A130_R0.319970.645
91_R100_D0.31970.645
16_R134_A0.310490.626
8_S41_S0.30680.619
127_R130_R0.305570.616
66_Y95_V0.305070.615
116_M119_Y0.303760.613
19_E137_K0.303290.612
78_L110_L0.300730.607
14_L38_I0.300060.605
43_S125_S0.299160.603
7_V38_I0.298040.601
109_L112_I0.293720.592
56_D59_S0.293510.592
60_G90_V0.29240.590
50_F54_L0.292140.589
112_I116_M0.28990.585
126_R130_R0.288480.582
97_E113_L0.287830.581
74_D118_E0.287360.580
72_G114_S0.284520.574
120_E123_R0.283850.573
123_R126_R0.278270.561
136_K140_K0.276860.558
45_P72_G0.274470.554
113_L116_M0.272920.551
132_M135_A0.271620.548
21_L95_V0.269820.544
74_D83_E0.266370.537
55_E59_S0.265170.535
105_S119_Y0.26460.534
80_E87_K0.26430.533
104_P119_Y0.264080.533
122_R125_S0.263220.531
6_R70_R0.262570.530
77_E80_E0.261690.528
45_P50_F0.259240.523
15_E138_R0.259230.523
57_I88_K0.258940.522
75_P118_E0.256640.518
67_D123_R0.256440.517
48_P52_E0.256380.517
41_S70_R0.255150.515
80_E83_E0.254870.514
110_L114_S0.253560.511
100_D103_D0.253450.511
64_V93_H0.251050.506
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
3g13A199.90.056
3guvA199.90.069
1gdtA0.971699.90.075
3uj3X0.957499.90.088
3ploX0.957499.90.092
4bqqA199.90.115
2r0qC0.957499.90.121
2gm5A0.971699.90.129
3lhkA0.957499.90.171
3bvpA0.886599.90.191

Page generated in 0.0156 seconds.