GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DUF2154 - Cell wall-active antibiotics response protein (DUF2154)
Pfam: PF09922 (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: 115
Sequences: 757
Seq/Len: 6.58
HH_delta: 0.898 (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
24_F49_F0.765044.385
24_F110_F0.587653.368
49_F110_F0.513812.945
51_D112_D0.507562.909
26_D51_D0.480322.753
56_V62_V0.406522.330
26_D112_D0.397962.281
50_G111_G0.396982.275
72_D112_D0.389642.233
25_G50_G0.380782.183
69_I109_G0.373692.142
70_F110_F0.359382.060
71_G111_G0.356462.043
51_D72_D0.340811.953
23_G109_G0.326731.873
48_G109_G0.314121.800
5_D51_D0.286831.644
47_A108_V0.266991.530
26_D72_D0.260031.490
61_G101_K0.252741.449
48_G69_I0.251261.440
5_D26_D0.241911.387
23_G48_G0.240581.379
61_G98_S0.220811.266
5_D112_D0.218891.255
8_Q12_S0.21471.231
47_A52_V0.211791.214
49_F70_F0.210891.209
28_T55_Y0.202861.163
63_R101_K0.202391.160
40_E103_I0.200851.151
44_D105_T0.198831.140
24_F70_F0.193451.109
28_T53_T0.192431.103
12_S15_L0.191621.098
46_D107_S0.188731.082
45_I52_V0.188181.079
15_L18_I0.183671.053
73_V108_V0.183411.051
19_N44_D0.182681.047
41_T102_L0.181171.038
64_V104_I0.179951.031
22_A47_A0.178881.025
53_T114_E0.177531.018
108_V113_V0.173560.995
27_V52_V0.17350.994
15_L41_T0.17320.993
46_D67_S0.170730.979
44_D103_I0.168690.967
30_D55_Y0.167590.961
21_Q107_S0.166620.955
23_G69_I0.164810.945
65_N105_T0.163170.935
50_G71_G0.161170.924
74_S114_E0.157550.903
31_L54_I0.156180.895
20_I45_I0.153390.879
68_T108_V0.149640.858
5_D72_D0.149470.857
67_S107_S0.148270.850
95_Y98_S0.144130.826
21_Q46_D0.143570.823
25_G111_G0.142720.818
31_L102_L0.142250.815
29_L56_V0.139860.802
12_S16_E0.137450.788
34_A41_T0.134980.774
45_I113_V0.134390.770
53_T74_S0.134140.769
10_I15_L0.134130.769
16_E26_D0.1340.768
68_T71_G0.132690.761
71_G113_V0.13260.760
10_I14_N0.13130.753
18_I102_L0.130810.750
96_D101_K0.128560.737
62_V99_E0.126820.727
42_V103_I0.124940.716
25_G54_I0.124890.716
66_V106_V0.124730.715
6_I27_V0.124580.714
33_Q53_T0.124270.712
65_N103_I0.124260.712
19_N105_T0.123590.708
4_G71_G0.123360.707
44_D65_N0.122930.705
30_D66_V0.121550.697
45_I101_K0.121220.695
63_R103_I0.11960.686
4_G50_G0.117340.673
61_G96_D0.116580.668
36_L39_G0.115850.664
20_I34_A0.115760.664
68_T72_D0.113850.653
9_Y30_D0.113580.651
11_N55_Y0.11270.646
26_D69_I0.111980.642
27_V47_A0.111920.641
16_E37_P0.111320.638
39_G98_S0.111120.637
9_Y33_Q0.1110.636
27_V113_V0.110870.635
66_V113_V0.110370.633
39_G115_V0.109980.630
29_L100_P0.109560.628
25_G71_G0.107370.615
24_F48_G0.107290.615
7_T28_T0.105670.606
17_D44_D0.105160.603
61_G115_V0.104190.597
40_E52_V0.104040.596
74_S112_D0.103930.596
15_L34_A0.103920.596
36_L59_D0.103730.595
21_Q67_S0.103520.593
56_V73_V0.102910.590
34_A66_V0.102760.589
12_S34_A0.101760.583
46_D53_T0.101610.582
108_V111_G0.101580.582
47_A114_E0.101510.582
14_N60_W0.101020.579
14_N39_G0.10030.575
44_D104_I0.099940.573
8_Q11_N0.099610.571
74_S99_E0.099540.571
11_N33_Q0.098840.567
36_L108_V0.098190.563
34_A59_D0.097930.561
22_A27_V0.097820.561
63_R67_S0.097670.560
17_D103_I0.097520.559
95_Y101_K0.097280.558
25_G97_Q0.096840.555
10_I34_A0.096160.551
24_F32_S0.095880.550
60_W101_K0.095870.550
42_V94_N0.095730.549
27_V53_T0.095310.546
5_D53_T0.095290.546
12_S100_P0.095090.545
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:
PDB Cov Prob HH_delta
1nkwE0.66969.30.898
3ljyA0.75657.30.902
3ib5A0.79135.40.907
3zzyA0.347850.909
3rwxA0.84.80.909
3jx8A0.77394.60.91
1qexA0.947840.912
3eqnA0.92173.70.914
3r8sG0.443530.918
2luwA0.843530.918
If you are interested in a protein containing this domain,
drop us a note and we'll try to predict the structure for you.

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