GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Hydrolase_like2 - Putative hydrolase of sodium-potassium ATPase alpha subunit
Pfam: PF13246 (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: 91
Sequences: 5107
Seq/Len: 56.12
HH_delta: 0.209 (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
30_R34_K1.079272.568
49_K68_R1.071782.550
64_S77_V1.065152.535
51_V73_Y1.050272.499
5_D50_I1.050022.499
19_I26_K1.014572.414
62_R87_R0.991322.359
64_S75_L0.892822.124
77_V84_I0.882122.099
41_I45_R0.857972.042
68_R73_Y0.805711.917
83_V86_D0.781041.859
26_K30_R0.760471.810
61_K80_A0.712771.696
51_V68_R0.698751.663
83_V87_R0.624581.486
58_S61_K0.609141.449
60_R64_S0.607111.445
84_I88_C0.603221.435
50_I67_V0.592181.409
63_M78_K0.582941.387
80_A83_V0.543731.294
49_K67_V0.53781.280
66_V73_Y0.532381.267
56_F61_K0.522891.244
6_A29_L0.519311.236
57_D61_K0.51921.235
40_D43_E0.511481.217
5_D53_E0.503361.198
42_K46_S0.470231.119
57_D60_R0.466381.110
61_K83_V0.463161.102
2_L67_V0.460881.097
62_R77_V0.452271.076
21_G26_K0.435711.037
54_I62_R0.414650.987
50_I65_V0.410530.977
69_N72_K0.406040.966
66_V75_L0.404790.963
31_F35_L0.404770.963
6_A26_K0.402450.958
50_I53_E0.386210.919
40_D45_R0.381960.909
46_S69_N0.375770.894
30_R33_K0.374520.891
41_I44_I0.369510.879
21_G24_T0.366690.873
3_C65_V0.365720.870
8_I30_R0.360160.857
54_I60_R0.359640.856
62_R83_V0.354080.843
51_V66_V0.349550.832
68_R71_G0.348870.830
24_T58_S0.345880.823
8_I19_I0.335450.798
3_C6_A0.334820.797
67_V76_Y0.329470.784
41_I46_S0.327430.779
43_E46_S0.32740.779
43_E47_K0.322370.767
25_E56_F0.316990.754
4_N76_Y0.314090.747
41_I69_N0.313860.747
77_V87_R0.312980.745
48_Y51_V0.304510.725
62_R84_I0.301470.717
4_N29_L0.299390.712
9_E20_I0.298710.711
31_F34_K0.293180.698
21_G45_R0.290060.690
33_K40_D0.289930.690
4_N28_L0.287560.684
31_F64_S0.285050.678
2_L6_A0.284410.677
58_S83_V0.282670.673
48_Y76_Y0.282470.672
8_I29_L0.281780.671
40_D47_K0.280710.668
54_I66_V0.278910.664
21_G30_R0.278450.663
25_E28_L0.278350.662
9_E52_A0.271150.645
3_C63_M0.269690.642
2_L48_Y0.268150.638
2_L76_Y0.26670.635
34_K46_S0.263110.626
22_D81_P0.262680.625
9_E45_R0.261230.622
22_D61_K0.261090.621
39_I43_E0.26060.620
30_R35_L0.26010.619
35_L39_I0.260.619
46_S72_K0.258960.616
47_K89_T0.258010.614
25_E63_M0.256330.610
46_S49_K0.256110.609
58_S80_A0.255330.608
28_L65_V0.255320.608
23_P81_P0.252260.600
52_A66_V0.251470.598
48_Y67_V0.250290.596
48_Y72_K0.246120.586
56_F80_A0.245490.584
24_T82_E0.244740.582
27_A55_P0.243840.580
47_K71_G0.242860.578
8_I34_K0.240250.572
81_P85_L0.239030.569
47_K51_V0.238950.569
54_I64_S0.238620.568
39_I47_K0.237750.566
49_K74_I0.236550.563
51_V69_N0.236370.562
85_L88_C0.233120.555
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
2zxeA0.97899.60.209
3ar4A0.98999.60.213
3ixzA0.97899.60.225
3gwiA0.846299.40.285
1mhsA0.8571990.423
3b8cA0.8022990.437
4fe3A0.516537.80.857
3zywA0.3626120.885
3rfuA0.758211.50.886
1svjA0.82429.30.89

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