GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF150 - Uncharacterised BCR YhbC family COG0779
Pfam: PF02576 (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: 1596
Seq/Len: 11.32
HH_delta: 0 (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
132_P135_D0.524832.554
6_L45_V0.499782.432
79_P133_F0.489112.380
3_E7_E0.476572.319
18_V27_L0.475222.313
29_V49_I0.472.287
115_E130_E0.46652.270
109_L119_E0.45742.226
15_D77_K0.457222.225
31_I45_V0.446142.171
94_L104_F0.417732.033
89_K107_K0.395861.927
30_F68_S0.385371.876
14_V81_D0.383611.867
43_E47_R0.351711.712
78_S81_D0.347671.692
38_S41_D0.346661.687
85_F141_L0.342731.668
17_E28_R0.33631.637
6_L13_L0.31481.532
86_I110_E0.313971.528
111_V133_F0.313191.524
11_L37_V0.308411.501
80_R83_E0.307381.496
2_I49_I0.302951.474
109_L128_E0.299311.457
91_K103_E0.296151.441
117_T130_E0.295671.439
112_D115_E0.294241.432
110_E117_T0.293811.430
107_K119_E0.291381.418
70_P74_R0.279051.358
12_E80_R0.277941.353
45_V49_I0.277541.351
46_S50_S0.276891.348
90_V108_L0.275211.339
52_L55_A0.273381.331
136_I139_A0.271.314
14_V75_P0.267691.303
14_V85_F0.267311.301
31_I37_V0.26711.300
79_P114_D0.266411.297
32_D84_R0.265751.293
117_T128_E0.262581.278
6_L9_L0.260811.269
32_D37_V0.260751.269
116_I136_I0.260681.269
42_C69_S0.260361.267
42_C46_S0.256721.249
81_D84_R0.254551.239
119_E128_E0.252861.231
96_Q135_D0.252211.228
37_V69_S0.252161.227
39_L42_C0.248961.212
95_K137_K0.248651.210
9_L44_K0.246261.199
17_E30_F0.244841.192
52_L56_E0.242441.180
114_D134_S0.242131.178
8_E48_A0.240941.173
109_L117_T0.239821.167
40_D43_E0.23511.144
33_K41_D0.234281.140
27_L53_L0.231291.126
31_I42_C0.226221.101
79_P111_V0.225011.095
18_V61_E0.222661.084
50_S54_D0.221321.077
85_F88_R0.216531.054
28_R66_E0.216511.054
25_R61_E0.215371.048
82_F139_A0.2141.042
11_L41_D0.211091.027
90_V118_L0.209681.021
75_P139_A0.209651.020
24_N64_T0.208551.015
81_D85_F0.208271.014
9_L48_A0.205220.999
21_E26_I0.204990.998
77_K81_D0.202930.988
12_E84_R0.201720.982
19_V26_I0.201510.981
120_V123_K0.200040.974
86_I111_V0.197420.961
106_G118_L0.195450.951
5_L45_V0.195110.950
43_E62_D0.194910.949
1_L52_L0.192520.937
90_V139_A0.192130.935
95_K102_K0.191510.932
112_D130_E0.191110.930
86_I109_L0.187570.913
14_V77_K0.187320.912
79_P83_E0.187310.912
21_E28_R0.184930.900
9_L45_V0.184370.897
91_K105_E0.178540.869
20_K25_R0.175380.854
113_E133_F0.172730.841
93_K103_E0.17160.835
76_L81_D0.169970.827
78_S82_F0.168530.820
37_V42_C0.168220.819
73_D85_F0.168210.819
30_F77_K0.16730.814
13_L16_V0.167030.813
51_A55_A0.166850.812
43_E46_S0.165850.807
75_P81_D0.164060.798
4_P7_E0.163510.796
110_E128_E0.162260.790
21_E25_R0.162170.789
39_L69_S0.16130.785
14_V39_L0.160720.782
5_L52_L0.160590.782
40_D66_E0.160120.779
15_D30_F0.160090.779
94_L131_I0.159930.778
31_I70_P0.159850.778
106_G131_I0.158110.770
5_L8_E0.156730.763
26_I64_T0.156720.763
4_P8_E0.155460.757
42_C82_F0.154960.754
50_S63_Y0.153290.746
83_E112_D0.152150.741
42_C67_V0.151340.737
48_A51_A0.15060.733
50_S58_P0.150550.733
115_E132_P0.149880.729
41_D44_K0.149720.729
82_F136_I0.149630.728
20_K28_R0.14950.728
92_V136_I0.147350.717
83_E86_I0.147260.717
12_E78_S0.147010.715
99_N104_F0.145390.708
4_P53_L0.145140.706
119_E122_G0.144550.704
19_V28_R0.14420.702
50_S57_D0.143660.699
15_D28_R0.143590.699
76_L141_L0.142280.692
27_L63_Y0.141690.690
39_L96_Q0.141050.686
82_F133_F0.140070.682
2_I6_L0.139470.679
22_G25_R0.139190.677
114_D132_P0.139180.677
79_P113_E0.13910.677
15_D25_R0.136420.664
18_V25_R0.136360.664
30_F37_V0.13560.660
21_E27_L0.135490.659
12_E81_D0.134480.655
49_I65_L0.133550.650
61_E122_G0.132980.647
34_D84_R0.131860.642
38_S43_E0.131840.642
108_L111_V0.131680.641
48_A55_A0.130640.636
112_D117_T0.129870.632
93_K137_K0.129240.629
77_K82_F0.129210.629
80_R85_F0.129060.628
54_D63_Y0.129050.628
28_R68_S0.129010.628
2_I29_V0.128650.626
27_L59_I0.128530.626
105_E121_E0.128190.624
27_L100_G0.127040.618
2_I141_L0.126790.617
62_D68_S0.126760.617
23_G84_R0.126650.616
8_E62_D0.125050.609
69_S75_P0.124870.608
76_L90_V0.124860.608
78_S83_E0.124810.607
101_R104_F0.124040.604
72_I85_F0.123510.601
108_L118_L0.123380.600
2_I13_L0.12320.600
92_V131_I0.122830.598
56_E60_P0.122720.597
70_P73_D0.121860.593
117_T137_K0.120740.588
87_G109_L0.120330.586
32_D36_G0.11990.584
18_V59_I0.119790.583
54_D57_D0.119170.580
115_E133_F0.119010.579
106_G114_D0.118820.578
89_K105_E0.118410.576
59_I62_D0.11820.575
81_D141_L0.118110.575
42_C141_L0.117890.574
75_P85_F0.117650.573
75_P84_R0.117370.571
77_K102_K0.1170.569
120_V138_K0.116970.569
40_D44_K0.116650.568
14_V104_F0.116470.567
83_E110_E0.11610.565
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
1ib8A0.99291000
1y96A0.475293.50.868
2e6zA0.418483.30.891
3pgwB0.446882.90.892
1zq1A0.46180.30.895
1ycyA0.468178.60.896
4a53A0.432678.30.897
1nz9A0.397272.20.902
4f7uG0.446863.90.907
1d3bB0.446862.90.907

Page generated in 0.0227 seconds.