GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
OSCP - ATP synthase delta (OSCP) subunit
Pfam: PF00213 (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: CL0255
Length: 172
Sequences: 2064
Seq/Len: 12
HH_delta: 0.035 (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
76_L88_I0.693663.638
14_K99_H0.648163.399
25_E66_S0.581093.048
149_I160_S0.54122.838
126_K133_K0.485092.544
106_T139_K0.473862.485
118_K138_Y0.419642.201
119_K122_E0.397242.083
115_E119_K0.386592.028
26_L89_L0.384852.018
108_T141_D0.379741.992
114_S117_Q0.377441.980
54_K78_D0.368241.931
115_E118_K0.365781.918
108_T139_K0.356851.872
106_T137_N0.354521.859
109_S113_L0.352681.850
106_T151_E0.340951.788
55_E59_E0.32961.729
23_L100_N0.329271.727
25_E69_T0.321951.688
96_V100_N0.316051.658
109_S148_F0.315171.653
107_V136_L0.304071.595
144_L160_S0.301911.583
49_P52_E0.297751.562
110_A140_V0.296431.555
119_K123_K0.290461.523
77_I82_L0.289761.520
108_T144_L0.288731.514
13_A22_V0.287871.510
107_V150_I0.286141.501
20_D100_N0.286031.500
118_K122_E0.286021.500
109_S138_Y0.283791.488
23_L96_V0.282971.484
58_D74_K0.282031.479
72_F88_I0.281641.477
104_E135_E0.278931.463
97_N104_E0.278541.461
144_L149_I0.274321.439
18_K66_S0.269541.414
61_F65_L0.268171.406
146_G161_V0.266761.399
148_F159_A0.266651.398
9_L72_F0.264351.386
52_E55_E0.263461.382
91_E94_E0.259691.362
109_S144_L0.259231.360
105_A152_V0.256681.346
51_E55_E0.255551.340
5_Y81_R0.251081.317
97_N102_I0.250291.313
27_Q93_E0.249761.310
42_F56_L0.249131.307
22_V69_T0.248751.305
120_K124_K0.247021.296
122_E126_K0.243391.276
23_L93_E0.242591.272
112_P118_K0.237391.245
145_I161_V0.235021.233
102_I135_E0.231371.213
23_L27_Q0.231141.212
43_L53_K0.230361.208
19_L92_F0.229691.205
146_G158_D0.229041.201
30_L90_E0.228311.197
123_K126_K0.228191.197
39_L60_I0.22341.172
104_E137_N0.222091.165
58_D62_K0.221431.161
163_S167_Q0.220971.159
20_D24_E0.21991.153
124_K127_K0.217681.142
121_L148_F0.21551.130
70_V74_K0.214851.127
103_V134_V0.211011.107
105_A136_L0.210291.103
10_F99_H0.20921.097
10_F95_L0.209191.097
103_V131_K0.208751.095
122_E136_L0.208071.091
107_V113_L0.20731.087
58_D70_V0.2041.070
108_T149_I0.203861.069
31_E35_S0.199181.045
123_K127_K0.19651.031
76_L82_L0.195371.025
18_K21_E0.193751.016
30_L93_E0.190991.002
93_E97_N0.189850.996
4_R81_R0.188760.990
129_Y152_V0.188620.989
75_L79_N0.188460.988
131_K134_V0.187220.982
61_F73_L0.186110.976
97_N135_E0.184520.968
40_R44_E0.184220.966
93_E166_E0.183480.962
124_K128_K0.182570.958
29_L61_F0.1820.955
6_A95_L0.180730.948
103_V129_Y0.176770.927
21_E25_E0.176710.927
62_K70_V0.176210.924
12_L68_E0.174870.917
7_K11_E0.172380.904
125_L134_V0.171210.898
129_Y155_K0.17110.897
10_F14_K0.171030.897
32_I61_F0.170420.894
114_S118_K0.169910.891
112_P138_Y0.168510.884
102_I133_K0.166540.873
67_E70_V0.166160.871
162_K166_E0.165690.869
24_E28_S0.165550.868
84_L87_E0.164530.863
45_S53_K0.16450.863
1_I84_L0.161840.849
109_S117_Q0.161730.848
125_L129_Y0.160860.844
166_E170_K0.159590.837
11_E15_E0.159020.834
113_L148_F0.158810.833
26_L69_T0.158730.832
72_F76_L0.156420.820
61_F70_V0.156320.820
116_E120_K0.154460.810
54_K74_K0.153570.805
158_D162_K0.152470.800
161_V170_K0.151620.795
65_L70_V0.151240.793
71_N74_K0.150860.791
30_L89_L0.15040.789
29_L65_L0.147620.774
57_L70_V0.14670.769
21_E66_S0.146380.768
105_A125_L0.145710.764
36_N39_L0.145110.761
12_L15_E0.143650.753
158_D163_S0.143220.751
97_N164_R0.143210.751
8_A81_R0.142440.747
19_L99_H0.14220.746
143_S162_K0.142080.745
9_L12_L0.140670.738
19_L96_V0.140640.738
149_I162_K0.140360.736
9_L69_T0.140110.735
13_A19_L0.139920.734
7_K145_I0.139230.730
39_L43_L0.139010.729
92_F96_V0.138080.724
67_E71_N0.13790.723
32_I39_L0.13780.723
111_F161_V0.13690.718
39_L42_F0.1360.713
18_K68_E0.135940.713
112_P140_V0.135840.712
53_K80_N0.135710.712
5_Y8_A0.135590.711
9_L22_V0.134860.707
18_K22_V0.134690.706
23_L92_F0.134490.705
12_L16_E0.134450.705
17_G27_Q0.134210.704
82_L88_I0.133140.698
57_L73_L0.133020.698
121_L157_I0.132990.697
48_I52_E0.132420.694
30_L86_P0.132310.694
103_V125_L0.131990.692
113_L121_L0.131660.691
166_E169_K0.130970.687
108_T151_E0.130080.682
68_E71_N0.129560.679
53_K82_L0.129450.679
87_E91_E0.129320.678
131_K165_L0.128910.676
156_V159_A0.128910.676
26_L30_L0.128310.673
155_K161_V0.128230.673
95_L98_E0.128090.672
21_E24_E0.1280.671
22_V25_E0.127890.671
161_V165_L0.12760.669
19_L100_N0.127430.668
154_D162_K0.127430.668
145_I165_L0.127340.668
32_I36_N0.127270.667
64_K70_V0.126660.664
98_E131_K0.126310.662
75_L164_R0.126090.661
21_E115_E0.125770.660
167_Q170_K0.125670.659
65_L69_T0.125490.658
80_N84_L0.125420.658
34_K57_L0.125290.657
125_L157_I0.124630.654
14_K17_G0.124320.652
22_V66_S0.124230.652
24_E115_E0.124160.651
52_E59_E0.123980.650
62_K87_E0.123330.647
50_K80_N0.122920.645
28_S65_L0.12290.645
113_L117_Q0.122610.643
91_E95_L0.122290.641
105_A153_G0.12220.641
87_E98_E0.122130.641
93_E96_V0.121440.637
16_E67_E0.121370.637
151_E156_V0.121370.637
42_F48_I0.121210.636
109_S140_V0.12080.634
150_I169_K0.120670.633
105_A129_Y0.120530.632
141_D162_K0.120510.632
9_L144_L0.12030.631
40_R55_E0.120210.630
10_F19_L0.120.629
5_Y75_L0.119930.629
134_V155_K0.11890.624
116_E119_K0.118040.619
46_P146_G0.117850.618
28_S31_E0.117510.616
49_P167_Q0.116830.613
116_E122_E0.116450.611
4_R169_K0.116190.609
46_P154_D0.115870.608
92_F152_V0.115810.607
45_S48_I0.115710.607
165_L168_L0.115420.605
39_L50_K0.114150.599
154_D161_V0.114020.598
121_L125_L0.113940.598
69_T72_F0.113890.597
98_E103_V0.113860.597
44_E83_S0.113780.597
46_P76_L0.113750.597
71_N101_G0.113690.596
2_A87_E0.113620.596
25_E63_G0.11340.595
30_L34_K0.113080.593
23_L89_L0.113070.593
149_I156_V0.112530.590
4_R163_S0.112250.589
80_N83_S0.112010.587
42_F156_V0.111680.586
146_G160_S0.111520.585
20_D102_I0.111510.585
156_V172_L0.111490.585
106_T123_K0.111120.583
125_L128_K0.111120.583
3_K154_D0.111090.583
2_A91_E0.110560.580
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
2wssS0.99421000.035
1abvA0.7599.90.351
2dm9A0.912896.60.846
3lg8A0.529196.50.846
3v6iA0.866391.40.883
4efaE0.930290.90.884
3tufA0.7558660.911
3gx8A0.569824.20.931
1dm5A0.784923.90.931
2r9vA0.709323.30.931

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