GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
MGDG_synth - Monogalactosyldiacylglycerol (MGDG) synthase
Pfam: PF06925 (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: CL0113
Length: 169
Sequences: 1448
Seq/Len: 8.57
HH_delta: 0.588 (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
140_R163_H0.373513.245
23_E88_F0.331322.878
149_K153_I0.286662.490
142_F165_T0.252172.191
96_T123_V0.245152.130
118_P139_D0.20731.801
120_V142_F0.204031.773
149_K164_V0.203941.772
92_L120_V0.195351.697
11_A14_R0.182381.584
149_K159_P0.181481.577
98_P123_V0.18041.567
153_I159_P0.179121.556
124_T144_A0.179111.556
146_E150_E0.176491.533
150_E153_I0.175741.527
153_I156_G0.169251.470
94_I121_T0.166421.446
125_D168_P0.165461.437
20_A91_D0.162691.413
158_P161_R0.162661.413
138_V141_Y0.15881.380
97_H125_D0.152291.323
95_S106_S0.152261.323
96_T121_T0.151591.317
7_A168_P0.150021.303
146_E149_K0.149531.299
75_R79_R0.147771.284
94_I123_V0.147631.283
143_V152_L0.144151.252
95_S101_A0.14281.241
144_A166_G0.142321.236
120_V140_R0.142191.235
143_V162_I0.140741.223
23_E90_P0.140721.223
85_L90_P0.140531.221
96_T124_T0.139771.214
96_T168_P0.139611.213
93_I117_I0.137791.197
119_V138_V0.13751.195
95_S119_V0.137351.193
131_P168_P0.137211.192
143_V149_K0.134291.167
127_D168_P0.132871.154
133_W137_G0.131411.142
100_P130_H0.131071.139
12_L20_A0.131041.138
70_L74_S0.13081.136
145_S148_V0.130741.136
112_G137_G0.130071.130
7_A11_A0.127261.106
92_L118_P0.127111.104
122_V142_F0.125631.091
134_I138_V0.125421.090
121_T124_T0.124981.086
98_P125_D0.124861.085
143_V148_V0.124351.080
111_R114_L0.12361.074
116_N153_I0.123351.072
106_S119_V0.122521.064
9_A13_E0.121921.059
122_V167_I0.119481.038
54_G132_F0.119181.035
78_A129_V0.118761.032
124_T167_I0.118431.029
97_H100_P0.117811.023
53_Y130_H0.117351.020
165_T168_P0.116561.013
79_R83_R0.115851.006
131_P152_L0.11561.004
25_V84_L0.114640.996
26_D97_H0.114630.996
95_S100_P0.113540.986
129_V155_R0.112960.981
94_I168_P0.112790.980
150_E154_E0.11190.972
90_P117_I0.111090.965
144_A148_V0.110810.963
110_R114_L0.110770.962
33_P51_P0.110680.962
144_A167_I0.109810.954
39_I77_F0.108970.947
141_Y162_I0.108140.939
7_A10_E0.107930.938
57_Y166_G0.10790.937
14_R160_E0.107280.932
122_V127_D0.107060.930
143_V164_V0.107010.930
13_E136_P0.1070.930
121_T143_V0.106370.924
153_I158_P0.105790.919
125_D130_H0.105770.919
86_R113_R0.105380.916
157_I162_I0.105320.915
112_G116_N0.1050.912
151_E155_R0.104770.910
123_V126_F0.104360.907
126_F141_Y0.103830.902
99_F125_D0.1030.895
134_I150_E0.102450.890
82_I114_L0.101920.885
83_R87_E0.10180.884
83_R91_D0.101770.884
93_I140_R0.101690.883
158_P163_H0.101640.883
123_V131_P0.101620.883
139_D168_P0.101390.881
82_I150_E0.100250.871
80_R89_Q0.100130.870
140_R159_P0.099990.869
90_P129_V0.099670.866
22_V93_I0.099430.864
86_R160_E0.09890.859
114_L117_I0.09860.857
9_A39_I0.098530.856
157_I161_R0.098030.852
156_G162_I0.097120.844
11_A161_R0.097010.843
82_I86_R0.096970.842
124_T128_T0.096940.842
83_R116_N0.096920.842
49_H81_L0.096660.840
156_G160_E0.096570.839
27_F148_V0.096550.839
97_H135_H0.096510.838
21_E85_L0.096480.838
122_V165_T0.096450.838
86_R114_L0.096430.838
94_I120_V0.096370.837
85_L163_H0.096150.835
98_P131_P0.096020.834
99_F124_T0.095340.828
97_H124_T0.094240.819
26_D133_W0.094170.818
33_P80_R0.093990.817
80_R84_L0.093950.816
123_V128_T0.093870.816
150_E159_P0.093630.813
101_A121_T0.093630.813
136_P154_E0.093580.813
85_L89_Q0.093530.813
153_I157_I0.093360.811
26_D125_D0.093320.811
89_Q116_N0.093190.810
10_E48_R0.093190.810
100_P127_D0.093150.809
84_L87_E0.092830.806
97_H131_P0.092560.804
29_E36_R0.092370.802
27_F130_H0.092330.802
13_E19_D0.092310.802
127_D167_I0.092170.801
74_S77_F0.091790.797
40_R89_Q0.091750.797
14_R19_D0.09150.795
10_E39_I0.091330.793
151_E154_E0.091220.792
99_F145_S0.091120.792
102_Q129_V0.091050.791
96_T100_P0.090790.789
100_P126_F0.090690.788
23_E148_V0.090660.788
93_I111_R0.090610.787
99_F127_D0.090410.785
29_E147_E0.090360.785
100_P145_S0.090270.784
141_Y167_I0.090050.782
127_D148_V0.089830.780
114_L146_E0.089790.780
126_F167_I0.089610.779
6_R148_V0.089260.775
102_Q138_V0.089250.775
26_D99_F0.088860.772
73_L152_L0.088730.771
113_R117_I0.088440.768
119_V129_V0.088390.768
36_R78_A0.088340.767
47_V129_V0.08820.766
97_H144_A0.08820.766
83_R154_E0.087820.763
14_R83_R0.087690.762
78_A110_R0.087540.761
82_I113_R0.086970.756
85_L114_L0.086970.756
8_L151_E0.086830.754
101_A138_V0.086790.754
28_L94_I0.086650.753
10_E46_M0.086640.753
121_T152_L0.086340.750
12_L150_E0.086310.750
117_I162_I0.086120.748
149_K162_I0.086090.748
96_T99_F0.085490.743
156_G159_P0.085470.743
69_F102_Q0.085030.739
21_E88_F0.084950.738
27_F74_S0.084740.736
93_I163_H0.084460.734
54_G58_R0.084350.733
9_A24_V0.084310.732
85_L116_N0.084310.732
86_R150_E0.084220.732
58_R61_D0.084150.731
94_I118_P0.084090.731
75_R83_R0.084030.730
57_Y85_L0.084020.730
148_V151_E0.083960.729
98_P101_A0.083910.729
82_I136_P0.083660.727
24_V27_F0.083590.726
28_L125_D0.083570.726
100_P125_D0.083070.722
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
2jjmA0.881798.90.588
2r60A0.923198.90.589
3s28A0.958698.90.591
3c48A0.905398.90.594
1v4vA0.899498.80.602
2gekA0.85898.80.606
1vgvA0.893598.80.606
3froA0.952798.80.61
3okpA0.840298.80.612
1rzuA0.958698.70.614
If you are interested in a protein containing this domain,
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