GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
RDD - RDD family
Pfam: PF06271 (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: 137
Sequences: 2340
Seq/Len: 17.08
HH_delta: 0.917 (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
13_I78_L0.679493.277
125_N134_K0.639243.083
84_D94_R0.540392.606
129_Q134_K0.529072.552
90_P95_A0.528512.549
14_D74_G0.485972.344
85_K129_Q0.464252.239
10_A80_L0.453312.186
9_L78_L0.453082.185
71_Q76_R0.449652.169
2_A80_L0.436042.103
91_S94_R0.407171.964
125_N129_Q0.371981.794
13_I77_L0.362011.746
65_P73_L0.339531.638
121_L131_L0.337781.629
75_K82_V0.333141.607
60_Y65_P0.321891.552
62_F66_W0.320231.544
95_A99_S0.318791.537
10_A74_G0.31661.527
98_R133_D0.297021.433
129_Q136_A0.293471.415
121_L125_N0.291331.405
64_V68_R0.287891.388
122_I130_T0.286551.382
66_W99_S0.27611.332
60_Y64_V0.270841.306
84_D88_N0.258741.248
101_L135_L0.25861.247
85_K137_G0.257811.243
2_A6_R0.257181.240
4_F122_I0.250761.209
115_L118_G0.247881.196
82_V98_R0.247351.193
64_V73_L0.246941.191
111_G118_G0.246421.188
94_R97_I0.243971.177
61_Y65_P0.243371.174
120_I124_F0.242761.171
6_R78_L0.241311.164
118_G121_L0.240421.160
62_F65_P0.238151.149
133_D136_A0.238041.148
27_Y31_S0.236751.142
19_S23_I0.23621.139
62_F72_T0.231281.115
70_G81_R0.228981.104
71_Q80_L0.224611.083
10_A78_L0.221071.066
67_A95_A0.218451.054
24_I51_I0.213641.030
53_I56_L0.211871.022
67_A92_F0.20851.006
54_F58_F0.207241.000
132_H136_A0.20720.999
84_D90_P0.205940.993
61_Y72_T0.20580.993
3_S6_R0.204760.988
75_K136_A0.203170.980
127_D134_K0.202390.976
84_D91_S0.199060.960
74_G77_L0.197710.954
10_A14_D0.195790.944
4_F128_R0.194540.938
65_P82_V0.193630.934
59_F63_I0.189690.915
62_F99_S0.189320.913
120_I123_L0.189030.912
16_L20_I0.188570.909
17_I73_L0.188440.909
63_I96_L0.186430.899
125_N128_R0.185420.894
12_L16_L0.185070.893
111_G132_H0.183310.884
57_V60_Y0.181540.876
116_I120_I0.181070.873
61_Y73_L0.180930.873
131_L135_L0.180930.873
82_V95_A0.179490.866
118_G132_H0.179140.864
99_S132_H0.17660.852
4_F8_F0.176360.851
67_A91_S0.175420.846
118_G130_T0.17510.844
111_G117_I0.173130.835
3_S123_L0.172970.834
27_Y30_F0.172890.834
5_W9_L0.170120.820
124_F128_R0.170.820
93_G97_I0.169550.818
75_K102_K0.169120.816
18_V22_I0.168510.813
52_I56_L0.167280.807
55_L58_F0.166560.803
62_F95_A0.16530.797
60_Y63_I0.164780.795
114_L118_G0.163610.789
23_I27_Y0.16250.784
79_G133_D0.16240.783
65_P75_K0.162350.783
101_L119_F0.162170.782
58_F62_F0.160290.773
75_K98_R0.159720.770
92_F96_L0.157880.761
13_I17_I0.157690.761
17_I77_L0.157680.760
83_V88_N0.157510.760
102_K118_G0.15750.760
119_F130_T0.157340.759
20_I24_I0.157190.758
97_I136_A0.156640.755
111_G114_L0.155880.752
5_W8_F0.15580.751
19_S54_F0.155240.749
13_I74_G0.154060.743
42_S46_F0.153860.742
8_F72_T0.153720.741
99_S115_L0.152860.737
66_W75_K0.152850.737
10_A75_K0.152490.735
26_F83_V0.151920.733
83_V87_G0.151590.731
61_Y66_W0.151210.729
11_F15_F0.150790.727
45_Q53_I0.150630.726
17_I20_I0.150340.725
130_T136_A0.149830.723
85_K97_I0.149250.720
70_G75_K0.149050.719
112_F115_L0.148770.718
7_R14_D0.14830.715
6_R9_L0.147370.711
70_G89_P0.146930.709
46_F50_L0.145880.704
102_K115_L0.145720.703
67_A71_Q0.145020.699
73_L120_I0.1440.695
88_N93_G0.143740.693
116_I122_I0.143340.691
52_I93_G0.143060.690
16_L19_S0.142950.689
111_G119_F0.142440.687
30_F42_S0.141860.684
94_R125_N0.141610.683
117_I131_L0.141540.683
22_I54_F0.141420.682
116_I121_L0.1410.680
100_L110_I0.140950.680
63_I99_S0.140130.676
69_K76_R0.13970.674
88_N126_P0.138760.669
115_L121_L0.138560.668
113_L117_I0.138410.668
61_Y90_P0.138380.667
66_W82_V0.137720.664
24_I28_L0.13670.659
94_R136_A0.136660.659
92_F95_A0.136630.659
47_L51_I0.136370.658
90_P94_R0.1360.656
5_W82_V0.135770.655
45_Q48_I0.135370.653
63_I67_A0.134970.651
50_L59_F0.134650.649
44_W52_I0.134230.647
46_F49_I0.133280.643
66_W95_A0.133050.642
63_I95_A0.132960.641
66_W70_G0.132620.640
8_F12_L0.132180.637
69_K75_K0.131740.635
97_I100_L0.131650.635
86_D89_P0.131480.634
101_L132_H0.131460.634
99_S102_K0.131150.633
30_F49_I0.130990.632
91_S136_A0.130760.631
75_K80_L0.130710.630
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
2cx6A0.321260.917
3kdpB0.35775.90.917
2za4B0.32125.70.918
3dh4A0.58394.70.921
4i0uA0.525520.933
3me7A0.43071.90.934
1rz2A0.3651.80.935
3owqA0.40881.70.935
2iubA0.52551.70.936
4ev6A0.51091.50.938
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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