GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Annexin - Annexin
Pfam: PF00191 (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: 66
Sequences: 1756
Seq/Len: 26.61
HH_delta: -0.091 (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
2_D27_R0.888912.585
55_T63_L0.858752.497
6_L10_L0.798612.322
52_K60_E0.733592.133
45_K50_D0.726192.111
40_K46_D0.720872.096
21_I59_F0.697952.029
39_Y50_D0.672541.955
16_D19_V0.658491.915
5_L23_I0.543081.579
6_L47_L0.542221.577
15_T54_E0.537851.564
37_Q41_K0.492151.431
4_E42_K0.491751.430
10_L54_E0.479681.395
1_Y5_L0.452081.314
62_L65_A0.446031.297
38_A41_K0.444281.292
58_D61_K0.442561.287
14_G54_E0.4421.285
46_D49_E0.431891.256
17_E59_F0.406831.183
49_E52_K0.403071.172
34_A37_Q0.402581.171
48_E64_L0.402241.170
25_C62_L0.385841.122
2_D31_Q0.370591.078
28_S31_Q0.370141.076
31_Q35_I0.365021.061
60_E64_L0.357851.040
12_G15_T0.351591.022
10_L14_G0.349491.016
7_H50_D0.342390.996
12_G54_E0.339330.987
20_L63_L0.338260.984
52_K64_L0.330260.960
32_L35_I0.329860.959
17_E21_I0.328290.955
20_L55_T0.32220.937
36_K48_E0.315880.918
22_E29_P0.308990.898
27_R31_Q0.30380.883
23_I27_R0.297870.866
3_A42_K0.297730.866
55_T59_F0.297380.865
25_C32_L0.296140.861
14_G17_E0.294410.856
33_R49_E0.293550.854
6_L9_A0.2920.849
34_A38_A0.288020.837
9_A12_G0.287970.837
50_D54_E0.287650.836
19_V22_E0.284440.827
3_A38_A0.283120.823
22_E26_T0.282650.822
33_R36_K0.281610.819
10_L50_D0.279040.811
55_T60_E0.277620.807
49_E59_F0.275860.802
4_E26_T0.273910.796
40_K44_G0.270490.786
1_Y37_Q0.269380.783
27_R35_I0.268460.781
19_V23_I0.263670.767
18_D22_E0.263490.766
22_E39_Y0.260430.757
18_D30_A0.259530.755
15_T56_S0.259030.753
4_E8_A0.258160.751
8_A16_D0.250170.727
33_R37_Q0.248530.723
4_E43_Y0.245320.713
5_L19_V0.239240.696
7_H11_K0.237660.691
36_K40_K0.235190.684
24_L36_K0.233770.680
48_E65_A0.233410.679
22_E28_S0.228950.666
7_H43_Y0.228840.665
2_D29_P0.228680.665
7_H45_K0.21840.635
61_K65_A0.2170.631
10_L13_W0.216270.629
5_L8_A0.216150.628
18_D41_K0.215260.626
38_A42_K0.212420.618
51_I63_L0.21120.614
58_D65_A0.209130.608
2_D5_L0.209080.608
28_S33_R0.208880.607
25_C66_L0.207780.604
29_P32_L0.207210.602
16_D21_I0.20630.600
51_I55_T0.206170.599
22_E30_A0.204160.594
15_T20_L0.203370.591
34_A41_K0.202690.589
39_Y48_E0.199250.579
5_L25_C0.1990.579
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
1n00A199.6-0.091
1w3wA199.6-0.089
1dm5A199.6-0.082
1hm6A199.6-0.082
1yiiA199.6-0.079
1axnA199.6-0.077
2hyvA199.6-0.072
2zhjA199.6-0.071
2zhjA199.6-0.063
1m9iA199.6-0.058

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