GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
GATase_6 - Glutamine amidotransferase domain
Pfam: PF13522 (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: CL0052
Length: 133
Sequences: 6798
Seq/Len: 51.11
HH_delta: 0.058 (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
59_E90_R1.636573.971
109_L130_F1.457013.536
63_K82_R1.204622.923
86_E89_E1.048522.544
46_H73_S0.963662.338
76_I91_L0.937182.274
65_H82_R0.898812.181
80_I87_A0.88032.136
98_A109_L0.815421.979
124_D127_G0.789431.916
109_L119_L0.750841.822
31_N71_T0.735541.785
65_H78_A0.717411.741
79_L87_A0.702381.704
79_L83_W0.694751.686
83_W90_R0.694231.685
97_F110_A0.683721.659
58_E61_G0.661141.604
94_A117_R0.65681.594
65_H81_H0.637791.548
79_L91_L0.613571.489
58_E62_E0.609211.478
88_L110_A0.608071.476
80_I99_V0.602991.463
57_R67_F0.59431.442
44_L77_A0.582861.414
87_A91_L0.581141.410
20_R47_N0.569291.381
103_T106_K0.568741.380
59_E63_K0.563471.367
96_A119_L0.545131.323
123_R128_Y0.544221.321
99_V108_F0.536881.303
80_I108_F0.532141.291
42_I101_D0.527531.280
38_R81_H0.518971.259
69_S74_E0.518481.258
14_A100_Y0.510851.240
61_G64_G0.508351.234
52_N56_L0.500691.215
124_D129_V0.498571.210
16_L45_A0.496311.204
44_L73_S0.495561.203
24_V53_Y0.483211.173
38_R65_H0.472531.147
57_R61_G0.470471.142
55_E58_E0.470371.141
95_F110_A0.467121.134
41_R103_T0.460231.117
83_W86_E0.452831.099
101_D104_P0.437361.061
46_H50_I0.43721.061
100_Y105_N0.436681.060
30_E70_D0.433271.051
54_K58_E0.427551.038
100_Y107_L0.423231.027
66_P78_A0.420811.021
39_D81_H0.417141.012
112_D115_G0.416111.010
55_E92_D0.414821.007
88_L91_L0.413481.003
52_N55_E0.412031.000
101_D108_F0.402760.977
10_L15_A0.40160.975
9_W43_A0.400980.973
121_Y128_Y0.39780.965
51_D94_A0.396950.963
98_A107_L0.394220.957
59_E62_E0.390810.948
124_D128_Y0.38980.946
121_Y130_F0.389210.944
123_R127_G0.381290.925
64_G67_F0.380450.923
109_L121_Y0.378350.918
18_H73_S0.376910.915
45_A98_A0.374080.908
106_K109_L0.370750.900
18_H46_H0.364460.884
50_I76_I0.357810.868
95_F113_P0.357170.867
13_E105_N0.356320.865
88_L97_F0.354230.860
41_R101_D0.353950.859
41_R81_H0.35050.851
30_E68_E0.349070.847
67_F75_I0.346760.841
29_E32_N0.346040.840
98_A130_F0.342270.831
16_L100_Y0.341750.829
26_S30_E0.338170.821
53_Y57_R0.337280.818
41_R104_P0.335990.815
61_G66_P0.333520.809
52_N93_G0.333430.809
34_P72_D0.332060.806
47_N72_D0.331140.804
85_E89_E0.329210.799
96_A117_R0.3260.791
59_E82_R0.324170.787
122_G126_D0.32390.786
114_L117_R0.323580.785
43_A100_Y0.323510.785
81_H84_G0.322840.783
96_A115_G0.320970.779
27_P30_E0.320270.777
38_R41_R0.317290.770
101_D106_K0.316410.768
38_R66_P0.315690.766
24_V71_T0.3150.764
16_L130_F0.310620.754
60_L67_F0.308980.750
51_D92_D0.307720.747
21_Y33_H0.305680.742
23_T49_N0.305250.741
24_V49_N0.303180.736
88_L95_F0.301870.733
20_R48_G0.300880.730
42_I81_H0.29930.726
92_D114_L0.293650.713
91_L95_F0.293430.712
76_I97_F0.292570.710
38_R78_A0.291080.706
50_I95_F0.28940.702
11_D14_A0.288530.700
20_R23_T0.288040.699
50_I53_Y0.285460.693
78_A81_H0.284990.692
35_F73_S0.284020.689
86_E90_R0.282680.686
111_R115_G0.280640.681
88_L108_F0.280360.680
76_I87_A0.279740.679
35_F69_S0.279220.678
40_G68_E0.274950.667
27_P32_N0.273210.663
14_A107_L0.271780.660
61_G67_F0.27150.659
21_Y117_R0.271380.659
42_I103_T0.270740.657
42_I80_I0.270530.656
68_E78_A0.270170.656
20_R72_D0.268150.651
123_R126_D0.264070.641
60_L64_G0.263540.640
118_P132_S0.263450.639
63_K83_W0.263210.639
67_F74_E0.25950.630
38_R58_E0.258910.628
112_D117_R0.258110.626
51_D117_R0.258010.626
20_R132_S0.257330.624
75_I79_L0.2560.621
26_S70_D0.253490.615
45_A130_F0.252660.613
31_N70_D0.251360.610
55_E59_E0.250890.609
47_N73_S0.250380.608
20_R25_G0.249930.606
59_E86_E0.24850.603
59_E83_W0.246740.599
57_R69_S0.246470.598
21_Y49_N0.246130.597
13_E54_K0.245010.595
15_A19_T0.244960.594
47_N76_I0.242870.589
119_L130_F0.242350.588
35_F71_T0.241730.587
122_G129_V0.240280.583
57_R75_I0.23940.581
24_V70_D0.239050.580
21_Y25_G0.238340.578
60_L90_R0.237190.576
18_H34_P0.237170.576
93_G112_D0.236260.573
106_K128_Y0.236040.573
56_L79_L0.235870.572
23_T46_H0.234520.569
33_H45_A0.234150.568
19_T31_N0.233320.566
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
1ct9A0.96241000.058
1ao0A0.9851000.067
2bplA0.96241000.112
1ecfA0.99251000.122
1xffA0.96241000.127
3mdnA0.969999.90.15
1q15A0.932399.90.172
1jgtA0.939899.90.226
1ea0A0.924899.90.239
1ofdA0.924899.90.25

Page generated in 0.0317 seconds.