GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
GSH-S_ATP - Prokaryotic glutathione synthetase ATP-grasp domain
Pfam: PF02955 (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: CL0179
Length: 173
Sequences: 14922
Seq/Len: 86.25
HH_delta: 0.286 (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
14_P76_P1.91683.398
29_E53_D1.897053.363
129_E133_Q1.861523.300
132_E136_P1.81733.221
52_R56_N1.601692.839
25_R58_N1.561772.768
20_D23_E1.471472.608
33_D53_D1.451632.573
16_L30_E1.396312.475
49_R77_F1.188882.107
58_N62_E1.093861.939
27_F30_E1.087071.927
27_F31_H1.070971.898
35_V77_F1.037511.839
21_K25_R1.033371.832
25_R53_D1.01591.801
28_I33_D1.006171.783
53_D58_N1.005811.783
128_R132_E0.969271.718
51_S56_N0.930411.649
21_K62_E0.927121.643
15_T75_Q0.913151.619
26_A30_E0.912891.618
35_V49_R0.897011.590
76_P154_K0.873761.549
133_Q136_P0.860031.524
35_V47_V0.844051.496
21_K58_N0.838441.486
78_L154_K0.830891.473
28_I34_I0.828161.468
151_I156_T0.82081.455
16_L27_F0.81721.449
23_E26_A0.804771.426
39_L71_P0.797831.414
25_R29_E0.792921.405
19_R23_E0.787481.396
34_I74_V0.785411.392
51_S79_P0.738431.309
18_S27_F0.736851.306
22_E25_R0.718151.273
22_E26_A0.711911.262
14_P30_E0.707341.254
48_F63_T0.690911.225
50_I60_I0.690741.224
33_D52_R0.689761.223
23_E27_F0.673391.194
59_S63_T0.672581.192
24_I61_L0.672041.191
130_I134_I0.670751.189
19_R71_P0.668241.184
44_G147_G0.660371.171
148_I158_I0.65991.170
26_A29_E0.65721.165
135_G146_V0.640091.135
90_L95_P0.635611.127
36_L74_V0.630371.117
95_P132_E0.628951.115
34_I50_I0.623671.105
84_G100_R0.617651.095
88_I131_C0.6171.094
18_S24_I0.616021.092
133_Q137_K0.614371.089
126_R129_E0.598951.062
37_K75_Q0.593791.053
137_K140_E0.593691.052
24_I57_L0.592061.049
59_S62_E0.590661.047
28_I57_L0.584351.036
17_V71_P0.582891.033
31_H34_I0.581521.031
94_E139_R0.573591.017
17_V39_L0.564051.000
85_D89_I0.554380.983
33_D51_S0.55420.982
131_C150_V0.551810.978
78_L156_T0.550720.976
56_N59_S0.548970.973
134_I137_K0.548470.972
33_D57_L0.53940.956
94_E136_P0.531040.941
137_K141_D0.525770.932
40_D69_E0.523620.928
130_I133_Q0.521150.924
14_P31_H0.519840.921
130_I150_V0.519240.920
130_I153_D0.519070.920
36_L72_V0.518590.919
61_L65_T0.50890.902
21_K65_T0.506320.897
33_D49_R0.497660.882
156_T159_N0.49640.880
48_F60_I0.493610.875
21_K61_L0.491340.871
146_V149_D0.490340.869
84_G152_G0.489490.868
97_H128_R0.487220.864
89_I145_F0.482510.855
28_I32_G0.479320.850
60_I64_L0.478560.848
134_I158_I0.477610.847
86_K127_E0.476790.845
39_L73_M0.473820.840
85_D90_L0.473340.839
36_L60_I0.463010.821
44_G111_N0.459460.814
56_N60_I0.458650.813
131_C148_I0.456030.808
90_L135_G0.451920.801
129_E132_E0.447540.793
13_P154_K0.445880.790
32_G76_P0.440750.781
48_F64_L0.439180.778
145_F149_D0.435360.772
87_R147_G0.433550.768
93_G136_P0.430320.763
86_K98_A0.427720.758
25_R28_I0.427070.757
91_F145_F0.422520.749
92_N139_R0.422390.749
29_E58_N0.421770.748
124_T127_E0.42050.745
65_T72_V0.412230.731
36_L50_I0.407540.722
125_E129_E0.407160.722
89_I99_V0.406170.720
84_G87_R0.404290.717
47_V73_M0.401280.711
87_R91_F0.399630.708
21_K24_I0.397340.704
98_A101_R0.39480.700
64_L72_V0.394570.699
89_I147_G0.389450.690
28_I53_D0.389140.690
131_C135_G0.386020.684
62_E66_K0.381980.677
103_P110_S0.380510.674
44_G159_N0.378170.670
157_E161_T0.377160.669
110_S114_A0.376990.668
13_P78_L0.375880.666
40_D71_P0.375670.666
104_A109_R0.37550.666
20_D61_L0.374470.664
48_F59_S0.369360.655
135_G139_R0.368160.653
86_K152_G0.367610.652
18_S23_E0.366610.650
27_F74_V0.362950.643
121_A124_T0.360920.640
114_A117_S0.357580.634
91_F96_S0.35660.632
92_N136_P0.356280.632
155_L158_I0.35580.631
33_D50_I0.355260.630
145_F151_I0.354780.629
126_R130_I0.35290.626
96_S99_V0.351330.623
58_N61_L0.348940.619
24_I74_V0.347590.616
95_P135_G0.346210.614
24_I27_F0.346170.614
86_K128_R0.343250.608
136_P140_E0.341790.606
134_I140_E0.341770.606
16_L26_A0.33830.600
116_G119_E0.337810.599
123_L127_E0.337810.599
140_E147_G0.337340.598
57_L61_L0.336140.596
37_K42_M0.335790.595
90_L131_C0.335780.595
111_N114_A0.333910.592
125_E128_R0.333680.591
134_I155_L0.332510.589
140_E146_V0.329470.584
15_T73_M0.328010.581
134_I138_L0.327340.580
99_V119_E0.326670.579
44_G89_I0.326420.579
92_N95_P0.324640.575
13_P76_P0.323910.574
31_H76_P0.322460.572
147_G150_V0.32140.570
90_L132_E0.320130.567
92_N141_D0.318150.564
88_I98_A0.317740.563
85_D101_R0.317450.563
111_N115_G0.317080.562
86_K121_A0.316730.561
135_G140_E0.316480.561
18_S74_V0.316050.560
71_P74_V0.31490.558
85_D147_G0.314610.558
113_A117_S0.313440.556
14_P154_K0.313090.555
76_P79_P0.312960.555
136_P139_R0.312620.554
38_P64_L0.31210.553
130_I155_L0.309880.549
126_R133_Q0.309110.548
65_T68_G0.308710.547
118_A121_A0.303820.539
20_D24_I0.30380.538
46_G75_Q0.302520.536
84_G123_L0.302520.536
22_E58_N0.302210.536
37_K149_D0.302140.536
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
1gsaA0.994299.90.286
4iwxA0.959599.90.306
3vpdA0.94899.90.328
1uc8A0.94899.80.338
1a9xA0.959599.80.351
3r5xA0.959599.80.353
3orqA0.919199.80.357
3k5iA0.942299.80.367
3glkA0.982799.80.367
3hblA0.982799.80.367

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