GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DeoRC - DeoR C terminal sensor domain
Pfam: PF00455 (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: CL0246
Length: 161
Sequences: 4361
Seq/Len: 27.09
HH_delta: 0.407 (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
21_D95_K1.281713.300
12_K15_S1.113272.866
34_L133_L1.104542.844
26_D120_K0.927312.388
96_A127_S0.926792.386
18_E21_D0.852882.196
64_E71_E0.83972.162
13_A133_L0.837372.156
95_K131_I0.789262.032
131_I155_Y0.775211.996
124_I148_A0.768281.978
11_R37_Y0.756911.949
7_R33_E0.756831.949
36_K56_E0.754851.944
24_F93_F0.722021.859
129_Q155_Y0.700321.803
94_D128_K0.691711.781
146_K149_D0.687591.770
95_K129_Q0.685871.766
136_S159_D0.668521.721
24_F123_M0.667581.719
19_D41_K0.662431.706
13_A97_F0.643211.656
124_I130_V0.638461.644
86_E89_R0.629981.622
89_R122_A0.618441.592
33_E36_K0.613611.580
93_F123_M0.608791.567
149_D152_D0.599521.544
34_L97_F0.598161.540
14_A37_Y0.588041.514
67_L79_F0.582591.500
47_V93_F0.582331.499
7_R37_Y0.581371.497
21_D94_D0.580471.495
25_L31_T0.57351.477
54_A67_L0.563511.451
16_L157_I0.554261.427
68_L87_A0.543361.399
109_L132_L0.538761.387
86_E90_Q0.538651.387
17_I38_L0.529141.362
10_A37_Y0.525941.354
27_S78_S0.522131.344
85_L118_E0.521741.343
6_K29_T0.521431.343
68_L84_A0.519231.337
139_F156_I0.513421.322
97_F131_I0.50691.305
46_V63_I0.502591.294
104_S108_G0.497831.282
100_A134_A0.497221.280
129_Q154_D0.490111.262
132_L153_I0.487731.256
20_G43_N0.486251.252
130_V153_I0.480761.238
5_E159_D0.478041.231
122_A125_E0.473491.219
9_I133_L0.471511.214
122_A126_N0.471181.213
16_L131_I0.454471.170
89_R125_E0.453371.167
13_A157_I0.451541.163
3_A33_E0.447261.152
109_L153_I0.445141.146
103_I139_F0.441811.138
68_L79_F0.436241.123
14_A34_L0.43061.109
71_E115_E0.42991.107
35_A57_L0.416451.072
18_E95_K0.416371.072
148_A152_D0.416051.071
103_I134_A0.414891.068
28_G31_T0.405831.045
7_R36_K0.405161.043
80_V83_I0.404411.041
100_A147_I0.401531.034
131_I157_I0.401521.034
45_T66_I0.401471.034
32_L52_P0.397481.023
31_T34_L0.392771.011
3_A7_R0.391021.007
5_E136_S0.389321.002
16_L155_Y0.38911.002
84_A119_V0.385420.992
105_E141_R0.385120.992
45_T64_E0.382220.984
72_V79_F0.381560.982
46_V57_L0.379770.978
30_T135_D0.379270.977
100_A132_L0.377770.973
17_I34_L0.376320.969
92_R146_K0.375830.968
12_K16_L0.374260.964
19_D43_N0.370420.954
5_E9_I0.369980.953
52_P77_L0.368450.949
55_N58_S0.36650.944
10_A34_L0.361680.931
81_G84_A0.36090.929
102_G110_T0.356880.919
17_I97_F0.356420.918
24_F126_N0.355890.916
10_A14_A0.349030.899
4_E7_R0.348070.896
97_F133_L0.34730.894
101_D111_T0.346720.893
125_E152_D0.34580.890
56_E59_E0.34440.887
13_A34_L0.342120.881
66_I71_E0.34050.877
10_A33_E0.338860.872
43_N62_N0.335990.865
6_K138_K0.33590.865
135_D138_K0.335630.864
68_L88_L0.334720.862
9_I30_T0.334130.860
29_T135_D0.333890.860
14_A17_I0.333720.859
90_Q121_R0.330760.852
104_S142_N0.329810.849
85_L119_V0.327450.843
6_K30_T0.322140.829
28_G101_D0.320890.826
104_S107_G0.320520.825
39_P60_N0.314650.810
35_A53_I0.314080.809
83_I87_A0.311040.801
11_R15_S0.31090.800
121_R125_E0.308520.794
25_L34_L0.30690.790
131_I154_D0.305320.786
76_S101_D0.305310.786
50_S53_I0.304210.783
105_E108_G0.301750.777
51_L79_F0.29960.771
82_P86_E0.299270.771
88_L123_M0.298870.770
110_T142_N0.296690.764
30_T138_K0.295870.762
111_T116_E0.295670.761
100_A109_L0.29530.760
35_A56_E0.293190.755
32_L56_E0.291810.751
65_V72_V0.291350.750
54_A79_F0.290420.748
13_A131_I0.289680.746
31_T53_I0.286750.738
103_I109_L0.286610.738
23_I46_V0.285020.734
25_L46_V0.282460.727
47_V91_F0.281650.725
8_A12_K0.280790.723
58_S77_L0.280390.722
85_L122_A0.280180.721
22_T47_V0.280020.721
111_T117_A0.279220.719
73_N116_E0.275770.710
84_A87_A0.275350.709
39_P56_E0.275130.708
4_E8_A0.274550.707
33_E37_Y0.272550.702
60_N63_I0.272440.701
114_E145_Y0.272280.701
7_R11_R0.271630.699
112_S143_S0.271550.699
111_T120_K0.271240.698
83_I91_F0.270960.698
5_E8_A0.268350.691
8_A11_R0.267460.689
48_T54_A0.266420.686
51_L67_L0.264810.682
99_G111_T0.26210.675
107_G146_K0.261910.674
17_I41_K0.26050.671
29_T138_K0.260010.669
115_E118_E0.259710.669
101_D116_E0.25930.668
96_A123_M0.258820.666
92_R128_K0.258020.664
101_D112_S0.255890.659
44_L63_I0.255220.657
73_N80_V0.255110.657
111_T147_I0.252160.649
99_G138_K0.251810.648
17_I95_K0.249510.642
34_L37_Y0.246010.633
82_P85_L0.245840.633
54_A72_V0.24460.630
23_I34_L0.243230.626
148_A153_I0.240660.620
26_D31_T0.240480.619
23_I97_F0.239760.617
91_F145_Y0.238780.615
23_I95_K0.238520.614
109_L147_I0.238230.613
50_S116_E0.23760.612
11_R40_D0.237080.610
91_F114_E0.236780.610
103_I150_L0.236040.608
117_A145_Y0.235770.607
24_F96_A0.234560.604
41_K44_L0.233470.601
83_I86_E0.232620.599
29_T133_L0.232320.598
27_S76_S0.232140.598
38_L48_T0.231950.597
130_V154_D0.230920.595
155_Y158_T0.229750.592
88_L122_A0.22960.591
83_I90_Q0.228270.588
98_I130_V0.227410.586
128_K142_N0.226580.583
25_L53_I0.226170.582
109_L148_A0.225690.581
69_G84_A0.225450.580
101_D120_K0.225340.580
19_D44_L0.225070.580
24_F88_L0.223140.575
21_D131_I0.22270.573
101_D143_S0.222090.572
67_L70_G0.221740.571
17_I20_G0.221240.570
31_T133_L0.220680.568
55_N77_L0.220460.568
89_R126_N0.219790.566
24_F47_V0.218670.563
25_L35_A0.215770.556
106_E142_N0.215560.555
85_L89_R0.213940.551
57_L72_V0.213710.550
76_S112_S0.212710.548
57_L60_N0.212210.546
79_F87_A0.211330.544
102_G140_G0.211130.544
122_A137_S0.209880.540
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
1uj6A0.863499.90.407
1m0sA0.857199.90.413
1o8bA0.863499.90.417
1lk5A0.869699.90.426
2f8mA0.869699.90.459
1xtzA0.869699.90.46
3kwmA0.869699.80.506
2pjmA0.863499.80.509
3hheA0.869699.80.525
3l7oA0.863499.80.525

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