GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
SCO1-SenC - SCO1SenC
Pfam: PF02630 (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: CL0172
Length: 174
Sequences: 5942
Seq/Len: 34.15
HH_delta: 0.19 (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
54_W163_P1.631873.897
53_K90_Q1.390463.320
162_D168_R1.347543.218
39_D43_K1.214932.901
36_T44_T1.163922.779
36_T46_T1.093692.611
79_Q83_G1.062592.537
162_D166_R1.032862.466
38_T44_T0.920012.197
46_T49_D0.918862.194
48_D51_K0.911812.177
41_D107_K0.860572.055
103_P121_T0.844062.015
76_S80_K0.821871.962
45_V50_L0.787291.880
32_V134_F0.747741.785
39_D45_V0.743341.775
107_K111_K0.702211.677
102_T105_V0.692321.653
139_E149_D0.641091.531
129_E133_Q0.634091.514
34_D46_T0.626551.496
128_E132_K0.622831.487
40_Q110_A0.617371.474
92_V120_L0.591711.413
34_D48_D0.591511.412
76_S116_D0.58681.401
40_Q103_P0.5851.397
80_K83_G0.564031.347
50_L55_V0.563761.346
56_L160_L0.562771.344
94_I120_L0.556911.330
130_L134_F0.556271.328
31_I166_R0.55511.325
55_V90_Q0.552721.320
40_Q107_K0.551771.318
54_W168_R0.536851.282
34_D47_L0.536631.281
64_C104_E0.534631.277
83_G90_Q0.527951.261
160_L171_Y0.523331.250
129_E132_K0.520931.244
75_L91_F0.500771.196
141_V149_D0.491891.175
138_Y155_S0.482661.152
39_D118_I0.482151.151
78_L81_Q0.481471.150
96_V152_I0.481361.149
157_F172_N0.479191.144
45_V49_D0.472941.129
50_L92_V0.472381.128
123_S126_E0.458131.094
124_R129_E0.451681.079
73_A77_Q0.440491.052
57_V94_I0.439211.049
104_E108_K0.436391.042
45_V120_L0.436281.042
128_E131_A0.430011.027
131_A138_Y0.429161.025
157_F170_I0.428211.022
37_L94_I0.424781.014
32_V167_I0.424351.013
161_I167_I0.421091.005
79_Q116_D0.418811.000
38_T43_K0.416340.994
64_C68_C0.412870.986
72_L99_E0.412870.986
51_K55_V0.411550.983
93_F119_G0.407130.972
85_E88_D0.399740.954
74_N77_Q0.38780.926
94_I130_L0.387580.925
59_F94_I0.386280.922
167_I170_I0.385010.919
81_Q84_E0.381960.912
160_L169_A0.380060.907
76_S117_F0.379570.906
60_G93_F0.37530.896
88_D163_P0.373910.893
75_L158_I0.373410.892
79_Q91_F0.372170.889
59_F134_F0.370550.885
72_L109_Y0.367950.879
37_L120_L0.363340.868
159_Y170_I0.361260.863
105_V108_K0.357470.854
32_V35_F0.357260.853
98_P101_D0.35560.849
60_G72_L0.353480.844
54_W89_V0.352520.842
50_L90_Q0.35170.840
141_V150_Y0.350120.836
122_G127_I0.348220.831
61_Y65_P0.347860.831
107_K110_A0.347760.830
73_A111_K0.346910.828
47_L55_V0.345590.825
128_E137_Y0.343330.820
55_V161_I0.34310.819
130_L133_Q0.34210.817
119_G122_G0.339260.810
97_D100_R0.338770.809
58_F71_T0.338040.807
83_G116_D0.337880.807
64_C113_F0.336660.804
71_T75_L0.33140.791
132_K137_Y0.330850.790
124_R128_E0.330320.789
39_D120_L0.330280.789
40_Q119_G0.328450.784
131_A134_F0.32830.784
71_T158_I0.327450.782
60_G63_R0.3270.781
35_F133_Q0.326540.780
58_F72_L0.325630.778
32_V55_V0.324840.776
43_K49_D0.324720.775
63_R105_V0.321420.767
117_F120_L0.319190.762
123_S131_A0.316230.755
57_V161_I0.312010.745
61_Y154_H0.31150.744
90_Q118_I0.311230.743
38_T121_T0.311030.743
68_C109_Y0.309980.740
32_V47_L0.309910.740
52_G164_D0.308620.737
77_Q81_Q0.307140.733
62_T109_Y0.305990.731
61_Y64_C0.304130.726
103_P106_L0.302680.723
70_T74_N0.302560.722
31_I34_D0.301520.720
96_V124_R0.299030.714
130_L135_G0.298720.713
80_K116_D0.298180.712
58_F93_F0.297740.711
96_V131_A0.297660.711
110_A115_P0.294420.703
51_K165_G0.294410.703
81_Q85_E0.294330.703
58_F158_I0.294310.703
142_P150_Y0.294240.703
139_E142_P0.292550.699
45_V92_V0.292410.698
58_F156_A0.289040.690
35_F47_L0.288250.688
63_R106_L0.287830.687
94_I123_S0.28680.685
67_V156_A0.286490.684
72_L93_F0.283420.677
38_T103_P0.281870.673
61_Y69_P0.279770.668
37_L123_S0.279340.667
71_T74_N0.278780.666
138_Y142_P0.27790.664
101_D105_V0.277750.663
37_L130_L0.276610.660
108_K111_K0.275720.658
62_T106_L0.275630.658
55_V92_V0.27430.655
59_F136_V0.273380.653
103_P107_K0.273270.653
153_D157_F0.271030.647
110_A119_G0.267910.640
77_Q80_K0.266610.637
61_Y156_A0.26560.634
63_R100_R0.264650.632
56_L158_I0.264630.632
121_T127_I0.263590.629
37_L47_L0.261960.626
79_Q90_Q0.261740.625
52_G163_P0.260380.622
67_V153_D0.260170.621
32_V57_V0.258070.616
56_L89_V0.257260.614
52_G162_D0.255440.610
33_P161_I0.25280.604
50_L118_I0.25180.601
106_L109_Y0.250840.599
64_C106_L0.249970.597
32_V130_L0.245670.587
140_K152_I0.245670.587
80_K84_E0.24520.585
71_T156_A0.243370.581
37_L45_V0.243130.581
62_T97_D0.242440.579
78_L82_L0.240990.575
127_I131_A0.24070.575
51_K164_D0.240420.574
108_K112_K0.240110.573
39_D107_K0.239380.572
93_F117_F0.237650.567
133_Q137_Y0.236250.564
76_S115_P0.235440.562
74_N78_L0.234750.561
96_V128_E0.232160.554
32_V161_I0.232070.554
82_L85_E0.232010.554
89_V160_L0.230750.551
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
4hdeA0.850699.90.19
3me7A0.810399.90.243
2b7kA0.925399.90.254
1xzoA0.873699.90.281
4g2eA0.787499.90.31
2rliA0.839199.90.312
2ggtA0.827699.90.314
2k6vA0.890899.90.316
4gqcA0.787499.90.325
3gknA0.810399.80.343

Page generated in 0.0313 seconds.