GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Cation_ATPase_N - Cation transporterATPase N-terminus
Pfam: PF00690 (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: 69
Sequences: 4775
Seq/Len: 69.2
HH_delta: -0.003 (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
55_K60_I1.70762.934
44_K52_K1.356752.331
25_E29_R1.356742.331
10_L17_S1.283432.205
26_V30_R1.193172.050
30_R35_P1.179262.026
45_S48_R1.105591.900
4_L12_R1.033461.776
28_E32_K0.98921.700
25_E28_E0.988471.699
5_S8_E0.929111.597
23_S27_E0.91161.567
4_L8_E0.84571.453
44_K48_R0.822931.414
27_E31_K0.808831.390
27_E30_R0.805711.385
46_L50_F0.798871.373
60_I64_I0.770031.323
16_S19_Q0.762341.310
29_R33_Y0.756811.301
8_E11_K0.744781.280
7_E11_K0.733661.261
58_F65_A0.727241.250
44_K49_I0.692731.190
38_L65_A0.684171.176
59_I63_L0.676311.162
48_R52_K0.675971.162
10_L16_S0.674081.158
28_E31_K0.653561.123
56_N59_I0.652651.122
22_S25_E0.648581.115
6_V10_L0.633431.088
59_I65_A0.621121.067
51_L54_F0.617911.062
24_E28_E0.617471.061
53_Q58_F0.606871.043
61_L69_S0.604181.038
46_L49_I0.603291.037
51_L55_K0.569840.979
59_I62_L0.567380.975
53_Q69_S0.565210.971
59_I69_S0.540760.929
55_K59_I0.53860.926
22_S26_V0.533370.917
37_E40_E0.526940.905
53_Q65_A0.525020.902
4_L9_V0.523750.900
49_I53_Q0.519280.892
52_K55_K0.516130.887
8_E12_R0.501920.863
13_L29_R0.495820.852
60_I63_L0.495640.852
63_L67_I0.480260.825
58_F61_L0.475240.817
53_Q57_P0.465510.800
24_E27_E0.463450.796
9_V13_L0.459680.790
50_F54_F0.456950.785
6_V9_V0.451210.775
48_R51_L0.442670.761
54_F63_L0.441770.759
11_K14_N0.408950.703
14_N25_E0.403530.693
49_I58_F0.399790.687
53_Q61_L0.393680.677
30_R33_Y0.390430.671
7_E10_L0.389520.669
54_F59_I0.389280.669
57_P60_I0.385240.662
57_P61_L0.384940.661
14_N32_K0.382890.658
21_L25_E0.381140.655
29_R32_K0.378050.650
62_L65_A0.377210.648
10_L14_N0.370360.636
55_K58_F0.367330.631
39_P49_I0.364660.627
62_L69_S0.362030.622
56_N69_S0.360640.620
14_N28_E0.358260.616
49_I56_N0.357290.614
13_L16_S0.35620.612
58_F69_S0.354030.608
23_S26_V0.349970.601
58_F62_L0.349810.601
19_Q24_E0.342760.589
47_W51_L0.340140.585
57_P66_A0.340010.584
5_S9_V0.328870.565
37_E57_P0.327180.562
58_F68_L0.322660.554
53_Q59_I0.319580.549
56_N60_I0.31940.549
41_P65_A0.313770.539
56_N61_L0.311510.535
53_Q56_N0.307950.529
53_Q62_L0.305990.526
63_L66_A0.304370.523
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
3ixzA199.5-0.003
2zxeA199.50.013
3ar4A199.50.027
3b8cA0.97199.40.077
1mhsA0.9855990.243
2w84A0.594226.10.823
3gd8A0.376816.60.838
4ga6A0.94215.50.839
1hv5A0.536213.40.844
1j4nA0.4783120.847

Page generated in 0.0389 seconds.