GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
MaoC_dehydrat_N - N-terminal half of MaoC dehydratase
Pfam: PF13452 (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: CL0050
Length: 132
Sequences: 4774
Seq/Len: 36.17
HH_delta: 0.117 (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
101_T118_E1.170063.222
86_R127_E1.136653.130
13_T93_T1.059932.918
102_D116_T1.042542.870
99_R118_E0.995772.742
46_G89_R0.919992.533
97_T122_T0.846952.332
122_T128_L0.822012.263
37_E40_R0.797952.197
120_E128_L0.75612.082
11_T93_T0.734172.021
15_T18_D0.719251.980
99_R120_E0.705111.941
11_T95_T0.68821.895
19_I90_P0.658231.812
89_R92_D0.644061.773
104_Y114_F0.643521.772
54_A88_L0.638131.757
36_E40_R0.63311.743
12_Y18_D0.629311.733
92_D124_Q0.619431.705
97_T120_E0.617121.699
36_E47_L0.610911.682
9_P97_T0.600161.652
18_D21_R0.546381.504
103_V115_V0.508351.400
36_E46_G0.490871.352
17_R20_R0.481541.326
95_T122_T0.478121.316
20_R24_L0.475171.308
16_R47_L0.474921.308
24_L29_P0.472981.302
104_Y116_T0.472421.301
19_I49_A0.470861.296
61_A96_A0.466071.283
96_A121_Y0.465251.281
93_T124_Q0.464271.278
16_R20_R0.454391.251
17_R21_R0.444441.224
58_A121_Y0.435061.198
38_Y42_A0.434471.196
33_Y51_P0.430631.186
122_T126_G0.425261.171
106_K114_F0.417121.148
54_A121_Y0.415811.145
77_H80_Q0.415551.144
54_A130_A0.41491.142
38_Y41_A0.414111.140
98_S119_T0.409881.129
96_A119_T0.409661.128
16_R36_E0.40141.105
121_Y130_A0.397141.093
98_S117_V0.395151.088
100_V117_V0.392381.080
14_V57_L0.384611.059
58_A96_A0.382361.053
13_T91_G0.373251.028
65_F68_L0.36280.999
55_V82_I0.355550.979
21_R24_L0.355220.978
100_V115_V0.35510.978
94_L129_V0.343980.947
65_F70_F0.343720.946
80_Q116_T0.338880.933
95_T126_G0.335210.923
26_V50_P0.334550.921
37_E41_A0.333350.918
9_P95_T0.332330.915
53_F57_L0.331340.912
124_Q127_E0.330390.910
12_Y57_L0.330190.909
85_H128_L0.328580.905
32_L42_A0.324510.893
23_A50_P0.323120.890
14_V53_F0.316240.871
8_E97_T0.315020.867
105_D113_V0.314480.866
103_V113_V0.312420.860
92_D129_V0.31140.857
46_G90_P0.309280.852
28_D33_Y0.309010.851
52_T55_V0.307660.847
58_A119_T0.304690.839
88_L129_V0.302370.833
88_L94_L0.298910.823
23_A34_L0.293570.808
52_T84_F0.293510.808
101_T116_T0.291160.802
43_G46_G0.289730.798
125_D128_L0.284620.784
35_D38_Y0.283510.781
52_T79_E0.283320.780
31_P35_D0.280490.772
68_L117_V0.278970.768
92_D125_D0.276390.761
14_V94_L0.27360.753
33_Y50_P0.267680.737
49_A53_F0.265230.730
71_D74_R0.264210.727
66_P70_F0.263380.725
106_K112_G0.263050.724
31_P38_Y0.262920.724
32_L48_I0.261850.721
40_R45_G0.259660.715
28_D50_P0.258290.711
45_G89_R0.257950.710
78_G114_F0.257480.709
31_P42_A0.256920.707
17_R24_L0.256120.705
8_E67_D0.255770.704
29_P34_L0.255440.703
79_E82_I0.254650.701
86_R89_R0.254170.700
73_T76_V0.250790.690
30_N33_Y0.246850.680
71_D75_L0.246110.678
78_G106_K0.245120.675
48_I89_R0.244390.673
43_G48_I0.242290.667
44_H87_P0.242260.667
60_P66_P0.240960.663
47_L90_P0.239620.660
39_A47_L0.239560.660
39_A44_H0.237940.655
16_R46_G0.236010.650
23_A28_D0.235480.648
55_V59_W0.233880.644
20_R34_L0.233560.643
77_H119_T0.231440.637
40_R46_G0.230060.633
20_R29_P0.22770.627
20_R47_L0.225840.622
64_M67_D0.225120.620
22_Y53_F0.221030.609
19_I28_D0.220980.608
61_A67_D0.220320.607
8_E95_T0.219630.605
83_E130_A0.21940.604
18_D56_V0.218990.603
12_Y15_T0.217350.598
55_V78_G0.215910.594
22_Y52_T0.215770.594
51_P84_F0.213550.588
28_D31_P0.212790.586
102_D105_D0.212730.586
49_A54_A0.211670.583
30_N38_Y0.211610.583
14_V49_A0.211480.582
18_D27_G0.211460.582
19_I91_G0.211450.582
7_F98_S0.211350.582
18_D53_F0.209360.576
18_D60_P0.209070.576
40_R43_G0.208890.575
48_I87_P0.208130.573
21_R25_A0.208120.573
74_R77_H0.207660.572
22_Y56_V0.207090.570
51_P54_A0.206620.569
59_W96_A0.206090.567
40_R120_E0.204850.564
22_Y49_A0.204060.562
55_V84_F0.203810.561
70_F75_L0.203390.560
28_D48_I0.198050.545
94_L121_Y0.197860.545
26_V33_Y0.197790.545
19_I50_P0.197470.544
76_V80_Q0.197180.543
25_A49_A0.196940.542
64_M117_V0.19670.542
64_M119_T0.196480.541
67_D72_L0.195940.539
16_R90_P0.195910.539
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
4ffuA0.969799.90.117
3exzA0.962199.80.139
4e3eA0.969799.80.14
2bi0A0.962199.80.151
2c2iA0.969799.80.165
4e3eA0.969799.80.169
1q6wA0.94799.80.194
3ir3A0.916799.80.196
2b3nA0.886499.80.21
1iq6A0.924299.80.212

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