GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
NT5C - 5 nucleotidase deoxy (Pyrimidine) cytosolic type C protein (NT5C)
Pfam: PF06941 (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: CL0137
Length: 191
Sequences: 11596
Seq/Len: 60.71
HH_delta: 0.336 (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
142_D147_N1.78173.664
151_F158_V1.635593.364
148_L158_V1.404742.889
79_V83_K1.371822.821
149_E153_N1.247012.565
139_V159_I1.191832.451
7_I92_I1.156232.378
84_K88_K1.114422.292
6_A95_I1.110452.284
35_T38_D1.068012.196
140_L151_F1.047892.155
5_I90_H1.043032.145
115_E121_I0.960061.974
13_L78_A0.953251.960
91_E125_N0.913841.879
12_V141_I0.906171.864
5_I141_I0.884841.820
5_I85_L0.827411.702
9_I14_A0.815371.677
140_L156_I0.785731.616
83_K87_D0.781881.608
146_H149_E0.778911.602
75_I163_Q0.762141.567
83_K123_Y0.760931.565
55_F58_K0.757311.557
148_L160_L0.753381.549
77_G80_E0.744411.531
84_K87_D0.741661.525
57_E61_R0.740211.522
86_R125_N0.737771.517
145_P149_E0.724521.490
10_D16_F0.709451.459
86_R123_Y0.704451.449
80_E83_K0.700891.441
58_K62_F0.692611.424
86_R92_I0.690161.419
120_F124_D0.684081.407
93_V135_V0.682211.403
9_I94_I0.676861.392
52_E55_F0.67241.383
85_L90_H0.664591.367
152_A158_V0.662351.362
74_P79_V0.658111.353
27_E62_F0.652431.342
141_I159_I0.651391.340
22_E26_E0.644141.325
139_V157_P0.638781.314
92_I124_D0.635451.307
100_P111_R0.634451.305
93_V126_L0.632461.301
149_E152_A0.629941.295
22_E71_N0.622161.279
67_G70_S0.617791.271
6_A140_L0.61481.264
36_P40_T0.566841.166
75_I78_A0.566431.165
9_I98_R0.559221.150
77_G81_A0.557821.147
157_P160_L0.537361.105
119_P122_P0.534481.099
22_E25_N0.528411.087
78_A82_L0.527831.086
15_D75_I0.522311.074
7_I81_A0.519661.069
58_K61_R0.510151.049
74_P120_F0.507961.045
17_N144_R0.50511.039
25_N36_P0.500231.029
12_V161_F0.499611.027
147_N150_Q0.49691.022
20_F24_F0.493621.015
27_E58_K0.492181.012
83_K122_P0.491371.011
140_L150_Q0.486421.000
19_A72_L0.485410.998
140_L158_V0.483710.995
140_L147_N0.480740.989
61_R65_E0.474720.976
60_W64_E0.46460.955
37_E41_G0.463760.954
59_L62_F0.462360.951
126_L134_L0.462270.951
18_S73_P0.461350.949
12_V147_N0.459520.945
6_A156_I0.457790.941
54_E58_K0.457720.941
150_Q154_A0.452490.931
10_D143_D0.451190.928
78_A81_A0.44970.925
92_I123_Y0.449260.924
20_F98_R0.448960.923
21_I39_I0.447340.920
96_T129_T0.447230.920
97_A146_H0.446680.919
81_A141_I0.44350.912
100_P129_T0.443250.912
128_F134_L0.440740.906
95_I140_L0.43950.904
75_I161_F0.438120.901
145_P160_L0.435460.896
11_G17_N0.427220.879
142_D158_V0.426230.877
14_A72_L0.425920.876
111_R115_E0.42430.873
80_E84_K0.422920.870
12_V142_D0.422110.868
51_T54_E0.42180.867
5_I139_V0.421630.867
34_L38_D0.420740.865
20_F23_W0.420720.865
7_I13_L0.420520.865
81_A84_K0.420420.865
10_D98_R0.413930.851
51_T55_F0.413510.850
6_A93_V0.413420.850
27_E30_K0.410520.844
53_P57_E0.410180.844
78_A163_Q0.409250.842
8_D143_D0.401420.826
148_L152_A0.395340.813
86_R89_G0.390920.804
59_L63_Y0.387420.797
81_A85_L0.386140.794
13_L94_I0.385390.793
6_A135_V0.385070.792
100_P131_D0.383940.790
93_V96_T0.38350.789
138_D156_I0.382450.787
7_I141_I0.381640.785
124_D127_I0.379160.780
97_A144_R0.376790.775
25_N34_L0.375780.773
18_S36_P0.374810.771
16_F20_F0.372110.765
15_D18_S0.37150.764
6_A150_Q0.367460.756
85_L92_I0.36710.755
98_R142_D0.366760.754
21_I36_P0.365860.752
146_H150_Q0.36460.750
15_D73_P0.363690.748
57_E60_W0.362350.745
26_E67_G0.355970.732
19_A97_A0.351330.723
73_P76_P0.350930.722
10_D13_L0.347110.714
38_D41_G0.346020.712
11_G14_A0.343080.706
95_I150_Q0.342990.705
9_I96_T0.342740.705
21_I25_N0.340650.701
34_L39_I0.339020.697
82_L123_Y0.339020.697
124_D130_G0.337790.695
98_R147_N0.336420.692
144_R147_N0.332960.685
23_W26_E0.332580.684
7_I85_L0.331990.683
151_F156_I0.330710.680
74_P78_A0.326740.672
5_I92_I0.32650.671
125_N128_F0.324840.668
28_F62_F0.324420.667
121_I124_D0.322810.664
94_I124_D0.322710.664
152_A157_P0.322430.663
56_Y60_W0.319780.658
147_N154_A0.319320.657
124_D129_T0.318690.655
42_Y47_K0.318540.655
26_E62_F0.318250.654
124_D128_F0.317490.653
18_S22_E0.316740.651
27_E31_N0.316670.651
163_Q166_N0.314840.647
50_I54_E0.314790.647
126_L135_V0.313920.646
145_P166_N0.31370.645
112_E115_E0.312150.642
7_I93_V0.311510.641
82_L86_R0.311150.640
50_I55_F0.311060.640
141_I147_N0.309620.637
54_E57_E0.308620.635
28_F58_K0.303170.623
128_F131_D0.302880.623
112_E116_R0.301710.620
62_F65_E0.301130.619
13_L82_L0.30050.618
19_A22_E0.299680.616
9_I13_L0.297350.612
10_D96_T0.29520.607
96_T100_P0.295170.607
116_R121_I0.294930.607
122_P125_N0.294150.605
150_Q156_I0.293320.603
47_K50_I0.292990.603
92_I96_T0.292920.602
66_P70_S0.292610.602
55_F59_L0.292250.601
140_L154_A0.291680.600
37_E40_T0.290920.598
8_D12_V0.29080.598
97_A150_Q0.290710.598
19_A71_N0.290270.597
120_F123_Y0.290090.597
83_K86_R0.288730.594
75_I98_R0.28860.594
45_W48_W0.286870.590
16_F98_R0.285330.587
95_I147_N0.284960.586
72_L98_R0.282120.580
114_L121_I0.281820.580
11_G16_F0.281330.579
90_H139_V0.280250.576
17_N147_N0.279830.575
113_W117_H0.279710.575
152_A160_L0.277660.571
11_G15_D0.273740.563
62_F67_G0.273450.562
92_I95_I0.27170.559
92_I125_N0.271290.558
12_V160_L0.271130.558
115_E122_P0.270220.556
17_N146_H0.266040.547
68_F71_N0.265660.546
20_F99_P0.265240.545
141_I161_F0.265110.545
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
3bwvA0.926799.90.336
1q92A0.947699.80.377
2i7dA0.926799.80.392
3k1zA0.937299.70.426
2ah5A0.916299.70.429
2zg6A0.91199.70.435
2hcfA0.968699.70.436
3l5kA0.937299.70.437
4gibA0.900599.70.438
2pkeA0.937299.70.441

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