GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
MR_MLE - Mandelate racemase muconate lactonizing enzyme C-terminal domain
Pfam: PF01188 (v26) Consensus Sequence
Clan: CL0256
Length: 67
Sequences: 3123
Seq/Len: 46.61
HH_delta: -0.027 (11Mar13)
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
32_L41_I1.21122.608
49_D52_G1.138012.451
16_M39_F1.047342.255
54_A58_Q1.004682.164
24_D27_E0.918161.977
29_I59_A0.854721.841
14_D39_F0.84121.812
33_R36_E0.831751.791
31_F35_L0.827911.783
43_E67_D0.778761.677
36_E61_R0.766751.651
32_L60_T0.742081.598
36_E62_V0.72861.569
25_L55_E0.725741.563
55_E58_Q0.717651.545
16_M40_W0.70691.522
53_L66_A0.694871.496
4_A7_E0.6631.428
55_E59_A0.656611.414
45_L56_L0.655171.411
34_A37_D0.653661.408
2_I17_V0.636741.371
3_R7_E0.636641.371
19_A23_W0.624031.344
9_V13_I0.606441.306
45_L52_G0.60031.293
25_L56_L0.587531.265
6_R15_L0.559811.206
19_A41_I0.535711.154
40_W67_D0.534491.151
23_W41_I0.516741.113
16_M67_D0.511711.102
29_I55_E0.507991.094
3_R37_D0.501611.080
5_V9_V0.475881.025
9_V15_L0.471781.016
20_N43_E0.470211.013
53_L64_I0.456040.982
23_W31_F0.449450.968
25_L52_G0.444840.958
33_R61_R0.435880.939
44_P64_I0.43360.934
2_I35_L0.419720.904
8_A11_P0.418170.901
6_R10_G0.412520.888
40_W43_E0.410130.883
40_W65_A0.408190.879
45_L53_L0.4060.874
43_E66_A0.402930.868
4_A8_A0.400180.862
29_I56_L0.397640.856
33_R59_A0.389750.839
29_I33_R0.381910.822
3_R34_A0.381350.821
21_Q45_L0.376940.812
56_L64_I0.367960.792
30_R34_A0.360580.777
35_L38_Y0.358710.772
33_R37_D0.347250.748
57_R64_I0.344640.742
3_R38_Y0.344040.741
30_R33_R0.342220.737
21_Q40_W0.341080.735
47_P66_A0.335950.723
25_L45_L0.330930.713
2_I38_Y0.325990.702
10_G13_I0.319820.689
51_E54_A0.31210.672
25_L29_I0.310870.669
43_E53_L0.308160.664
18_D22_A0.308010.663
20_N67_D0.298880.644
41_I44_P0.293380.632
52_G55_E0.291530.628
26_E30_R0.290950.627
20_N44_P0.289210.623
17_V39_F0.288230.621
36_E60_T0.278270.599
23_W66_A0.276870.596
17_V35_L0.272380.587
16_M53_L0.271130.584
16_M21_Q0.267880.577
6_R14_D0.267520.576
31_F36_E0.260810.562
44_P56_L0.254080.547
50_I53_L0.250.538
43_E65_A0.244980.528
25_L49_D0.242970.523
22_A43_E0.241060.519
21_Q47_P0.240550.518
7_E11_P0.240210.517
6_R12_D0.239520.516
26_E29_I0.237740.512
38_Y63_P0.236770.510
19_A46_P0.23610.508
54_A57_R0.235050.506
19_A67_D0.234740.506
17_V20_N0.233030.502
27_E30_R0.232250.500
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
4hpnA199.7-0.027
4h1zA199.6-0.021
4hnlA199.6-0.011
2chrA199.6-0.008
3ekgA199.6-0.003
3fcpA199.6-0.003
3fxgA199.6-0.002
4a35A199.6-0.002
3tcsA199.60.011
3dgbA199.60.012

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