GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
OAD_gamma - Oxaloacetate decarboxylase gamma chain
Pfam: PF04277 (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: 79
Sequences: 440
Seq/Len: 5.57
HH_delta: 0.843 (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
65_L68_A0.443393.076
24_L28_L0.305812.122
18_V23_I0.258231.791
64_E68_A0.242211.680
10_I13_G0.241741.677
61_D65_L0.233961.623
28_L31_K0.230221.597
4_G7_I0.215831.497
18_V30_S0.206991.436
17_L28_L0.204631.420
61_D66_V0.186171.292
70_A74_A0.181291.258
23_I26_I0.180761.254
26_I30_S0.174941.214
8_M12_M0.170081.180
42_P51_K0.169471.176
18_V77_R0.169351.175
62_D65_L0.166231.153
10_I14_I0.165171.146
22_L29_M0.165131.146
20_I24_L0.164091.138
35_K39_K0.163771.136
8_M13_G0.163641.135
65_L70_A0.155041.076
69_I72_A0.153731.066
23_I30_S0.150741.046
68_A71_A0.148931.033
68_A75_A0.148811.032
6_Q75_A0.148531.030
44_P48_S0.14781.025
3_E11_G0.14731.022
61_D68_A0.146931.019
41_K49_A0.146161.014
4_G11_G0.144111.000
14_I62_D0.142650.990
11_G21_L0.142380.988
66_V70_A0.141120.979
43_A48_S0.140720.976
18_V22_L0.140470.974
7_I29_M0.140010.971
11_G23_I0.139370.967
42_P46_A0.138670.962
7_I11_G0.137820.956
30_S37_A0.134510.933
24_L31_K0.134490.933
47_A52_A0.134340.932
43_A47_A0.133820.928
3_E14_I0.133010.923
16_F62_D0.132990.923
3_E6_Q0.132480.919
48_S51_K0.130570.906
26_I74_A0.129410.898
16_F67_A0.127810.887
23_I33_I0.126710.879
30_S33_I0.126680.879
49_A52_A0.1260.874
16_F73_I0.125540.871
5_L10_I0.124430.863
12_M21_L0.123890.859
13_G29_M0.123790.859
17_L25_V0.123150.854
73_I77_R0.122930.853
66_V71_A0.121830.845
8_M23_I0.121640.844
70_A76_Y0.121450.843
6_Q29_M0.121390.842
15_V18_V0.121250.841
27_S31_K0.120850.838
71_A75_A0.120590.837
44_P50_P0.118970.825
40_E51_K0.117440.815
34_R45_P0.117290.814
20_I26_I0.117210.813
5_L40_E0.116380.807
64_E67_A0.116170.806
47_A50_P0.115250.800
47_A51_K0.114680.796
15_V69_I0.114280.793
14_I65_L0.11360.788
8_M18_V0.113550.788
30_S77_R0.113230.786
4_G18_V0.112970.784
20_I28_L0.112780.782
43_A46_A0.112710.782
66_V74_A0.111950.777
20_I32_L0.111590.774
26_I29_M0.111130.771
9_I44_P0.111070.771
17_L20_I0.109340.759
38_P41_K0.109260.758
16_F20_I0.107850.748
14_I67_A0.10760.746
67_A70_A0.106550.739
37_A40_E0.106490.739
18_V76_Y0.106410.738
5_L9_I0.106270.737
11_G18_V0.106210.737
3_E7_I0.106140.736
21_L27_S0.10580.734
14_I29_M0.104520.725
25_V74_A0.104290.723
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
4j05A0.784829.30.843
2kncA0.594921.20.853
1pw4A0.645617.80.858
2gqbA0.708911.10.869
3bo0B0.43049.40.873
2cfqA0.64568.40.876
2kogA0.341880.877
2dw3A0.70896.50.882
4b4aA0.65825.80.884
3o7qA0.49375.60.885
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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