GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
NMT_C - Myristoyl-CoAprotein N-myristoyltransferase C-terminal domain
Pfam: PF02799 (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: 190
Sequences: 2755
Seq/Len: 14.5
HH_delta: 0.436 (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
145_A155_L0.845634.352
32_R38_D0.816094.200
132_L160_F0.753643.879
32_R81_E0.59433.059
156_E162_P0.47352.437
40_P61_E0.472382.431
153_S156_E0.471872.429
88_T122_T0.455142.343
48_K119_A0.427342.199
86_K121_S0.424892.187
162_P165_G0.41262.124
91_F131_A0.392392.020
147_D151_N0.388672.000
79_V87_I0.376161.936
129_N133_I0.340371.752
41_Q86_K0.333121.715
142_V163_G0.322481.660
133_I137_N0.319361.644
89_D118_V0.317641.635
125_K157_D0.315821.625
65_K69_L0.299031.539
132_L143_F0.293751.512
41_Q87_I0.286341.474
44_K48_K0.285321.468
34_M42_V0.28391.461
60_S63_E0.28041.443
40_P44_K0.273971.410
147_D155_L0.268611.382
61_E65_K0.266581.372
109_L135_A0.266491.372
134_L137_N0.258971.333
36_E65_K0.257241.324
39_V61_E0.256241.319
45_L87_I0.253991.307
127_L130_D0.252081.297
155_L160_F0.25151.294
86_K119_A0.250091.287
28_T126_E0.248431.279
26_T29_P0.247341.273
93_F135_A0.244621.259
32_R35_E0.242611.249
30_G81_E0.237551.223
163_G167_L0.235121.210
30_G85_G0.234831.209
125_K158_L0.234311.206
81_E87_I0.231521.192
80_V127_L0.230071.184
118_V123_R0.228861.178
48_K121_S0.227361.170
93_F131_A0.226331.165
111_A143_F0.225081.158
134_L138_E0.22491.158
43_T61_E0.22251.145
38_D81_E0.21921.128
126_E129_N0.219091.128
86_K122_T0.217181.118
81_E85_G0.211631.089
45_L117_Y0.207211.066
128_M160_F0.205571.058
120_T123_R0.201621.038
48_K120_T0.199891.029
109_L140_F0.19981.028
128_M154_F0.197321.016
128_M158_L0.196411.011
50_L117_Y0.195511.006
119_A122_T0.19531.005
29_P80_V0.19390.998
124_L155_L0.192010.988
46_L90_F0.191170.984
125_K129_N0.189460.975
109_L112_A0.189180.974
45_L49_Y0.187660.966
39_V43_T0.18690.962
43_T64_V0.183940.947
130_D134_L0.180770.930
114_S155_L0.180660.930
93_F134_L0.177930.916
110_K148_L0.177580.914
78_Y130_D0.177370.913
35_E38_D0.17620.907
72_K75_V0.174620.899
124_L127_L0.17420.897
144_N163_G0.172950.890
148_L151_N0.17250.888
127_L131_A0.172170.886
31_L130_D0.171390.882
41_Q45_L0.170810.879
114_S128_M0.16840.867
42_V64_V0.165420.851
110_K147_D0.165060.850
154_F158_L0.164290.846
108_T144_N0.163330.841
42_V87_I0.162790.838
36_E39_V0.158980.818
91_F114_S0.158660.817
49_Y117_Y0.158330.815
28_T130_D0.157120.809
59_F63_E0.15690.808
77_S90_F0.156380.805
128_M155_L0.155720.801
124_L154_F0.154370.795
44_K47_N0.153910.792
111_A128_M0.153890.792
149_M165_G0.153740.791
80_V89_D0.153110.788
91_F135_A0.152670.786
118_V124_L0.152610.785
62_E66_H0.152260.784
41_Q44_K0.152130.783
31_L126_E0.151550.780
128_M143_F0.151550.780
90_F117_Y0.150610.775
34_M77_S0.148770.766
126_E130_D0.147430.759
152_S156_E0.146920.756
44_K86_K0.144310.743
41_Q81_E0.144250.742
146_L166_N0.143820.740
40_P71_R0.143090.736
66_H70_P0.14280.735
97_P108_T0.142690.734
45_L119_A0.142560.734
25_E81_E0.141360.728
127_L136_K0.140840.725
89_D127_L0.140620.724
126_E136_K0.140380.723
129_N157_D0.14020.722
35_E137_N0.138110.711
80_V88_T0.136240.701
91_F124_L0.135950.700
112_A146_L0.135280.696
141_D163_G0.134570.693
27_K82_D0.13450.692
45_L50_L0.134460.692
48_K58_V0.13430.691
48_K51_K0.133950.689
132_L158_L0.133590.688
25_E82_D0.131950.679
117_Y123_R0.131770.678
163_G168_N0.13120.675
118_V151_N0.129680.667
114_S118_V0.129410.666
122_T138_E0.128750.663
141_D167_L0.128380.661
96_L140_F0.127970.659
133_I136_K0.127870.658
40_P65_K0.12770.657
110_K113_Y0.126540.651
92_S110_K0.12650.651
142_V164_D0.126390.651
145_A154_F0.125360.645
82_D86_K0.12520.644
135_A143_F0.124640.642
34_M90_F0.124310.640
109_L158_L0.124260.640
165_G168_N0.124050.638
24_E31_L0.123230.634
85_G121_S0.122830.632
76_Y134_L0.122710.632
114_S124_L0.122710.632
36_E69_L0.122680.631
46_L169_Y0.122560.631
29_P89_D0.122350.630
68_F77_S0.122150.629
24_E134_L0.121730.627
135_A138_E0.121650.626
82_D87_I0.121620.626
34_M79_V0.121430.625
141_D165_G0.121350.625
118_V121_S0.121310.624
131_A135_A0.119720.616
46_L77_S0.119590.616
132_L136_K0.119460.615
25_E83_P0.119180.613
161_G165_G0.118880.612
111_A140_F0.118870.612
30_G133_I0.118570.610
144_N165_G0.118470.610
73_N138_E0.118360.609
78_Y81_E0.118050.608
94_Y145_A0.1180.607
133_I161_G0.117980.607
24_E28_T0.11750.605
36_E70_P0.117140.603
52_K148_L0.117010.602
61_E64_V0.1170.602
43_T47_N0.116970.602
40_P66_H0.116420.599
46_L117_Y0.116070.597
35_E152_S0.115820.596
34_M128_M0.115420.594
55_L113_Y0.115250.593
82_D88_T0.114960.592
43_T145_A0.114950.592
64_V68_F0.114790.591
37_K85_G0.114650.590
63_E71_R0.11460.590
73_N83_P0.114410.589
37_K44_K0.11410.587
112_A140_F0.113880.586
129_N143_F0.113760.586
52_K73_N0.113410.584
164_D167_L0.113030.582
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
1p0hA0.878999.60.436
1rxtA0.989599.60.436
3iu1A0.989599.60.442
4b14A0.984299.60.445
2wuuA0.984299.50.453
3i9sA0.905399.50.458
1iicA0.989599.50.461
3i3gA0.810599.50.463
1iykA0.989599.50.463
4evyA0.836899.50.466

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