GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
PIN_4 - PIN domain
Pfam: PF13638 (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: CL0280
Length: 133
Sequences: 2776
Seq/Len: 20.87
HH_delta: 0.151 (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
24_V100_L0.491012.540
5_T93_I0.490462.537
94_L118_L0.454772.353
28_T89_N0.41142.128
90_D115_D0.374181.936
32_E90_D0.369441.911
97_A111_L0.364791.887
111_L122_A0.355771.840
6_N90_D0.351331.817
1_Y21_N0.338121.749
29_V93_I0.332071.718
10_H114_N0.326731.690
3_L8_L0.322431.668
8_L54_A0.307111.589
39_S48_R0.292511.513
78_I99_Y0.29191.510
35_R89_N0.290931.505
5_T32_E0.290411.502
25_I29_V0.286721.483
113_T119_R0.286391.482
34_D37_K0.283831.468
98_L125_E0.282741.463
2_V102_E0.278121.439
8_L11_H0.275191.424
22_K70_R0.266071.376
99_Y103_E0.265341.373
14_L18_L0.251611.302
31_E35_R0.251031.299
6_N115_D0.249711.292
111_L118_L0.249691.292
113_T118_L0.248311.285
9_L36_L0.245541.270
7_V114_N0.239331.238
35_R39_S0.235351.217
117_N121_K0.232821.204
97_A127_I0.231951.200
3_L112_V0.23011.190
32_E115_D0.230041.190
59_E63_K0.228331.181
2_V96_C0.225071.164
26_P96_C0.223891.158
57_W60_K0.223841.158
97_A102_E0.223761.158
119_R129_A0.215651.116
28_T92_R0.214851.111
6_N32_E0.212221.098
5_T9_L0.211971.097
5_T90_D0.208531.079
8_L29_V0.207091.071
2_V26_P0.204971.060
14_L17_K0.204921.060
76_E79_D0.203871.055
91_D121_K0.202491.048
88_R91_D0.198971.029
29_V33_L0.198241.026
31_E34_D0.197341.021
7_V112_V0.196351.016
20_Q31_E0.194111.004
9_L51_A0.193621.002
94_L122_A0.191070.988
27_L31_E0.190360.985
36_L39_S0.189050.978
111_L124_A0.18870.976
41_R47_L0.186510.965
115_D118_L0.185340.959
76_E103_E0.185160.958
25_I58_L0.1850.957
1_Y14_L0.183770.951
9_L47_L0.183580.950
2_V97_A0.182160.942
63_K88_R0.179390.928
17_K64_R0.178540.924
25_I93_I0.175830.910
52_R56_R0.175580.908
98_L102_E0.174950.905
122_A129_A0.173990.900
122_A126_G0.173930.900
8_L12_P0.17270.893
119_R123_R0.172650.893
46_E50_R0.170940.884
2_V100_L0.170580.882
113_T122_A0.169870.879
5_T29_V0.167060.864
93_I96_C0.167030.864
5_T33_L0.166570.862
124_A128_P0.165830.858
50_R60_K0.164440.851
53_E56_R0.164160.849
10_H117_N0.163610.846
28_T87_Q0.16350.846
50_R53_E0.162590.841
63_K103_E0.162130.839
40_S48_R0.161430.835
16_E94_L0.157580.815
120_L123_R0.156280.808
89_N93_I0.155270.803
51_A58_L0.15510.802
26_P29_V0.154820.801
60_K64_R0.154490.799
21_N130_V0.15340.794
51_A55_I0.15260.789
31_E91_D0.152580.789
36_L48_R0.152070.787
60_K63_K0.151910.786
112_V130_V0.151910.786
56_R60_K0.150890.781
28_T93_I0.150690.780
64_R101_Q0.150130.777
7_V128_P0.150110.777
8_L15_L0.149430.773
20_Q130_V0.14940.773
75_D99_Y0.148860.770
88_R92_R0.148540.768
89_N92_R0.148360.767
22_K72_Q0.14830.767
30_L34_D0.148270.767
30_L62_L0.148060.766
85_D92_R0.147830.765
9_L119_R0.147740.764
63_K76_E0.145680.754
92_R113_T0.145280.752
70_R73_T0.144850.749
117_N120_L0.144660.748
9_L54_A0.143940.745
68_S87_Q0.1420.735
29_V92_R0.141830.734
74_S123_R0.141790.733
70_R101_Q0.141030.730
19_E55_I0.140960.729
9_L23_I0.140150.725
27_L30_L0.139190.720
19_E123_R0.138850.718
115_D119_R0.138540.717
33_L55_I0.138080.714
47_L50_R0.137890.713
78_I95_N0.137880.713
59_E116_K0.137090.709
23_I26_P0.136440.706
53_E59_E0.135580.701
25_I92_R0.135110.699
11_H93_I0.134810.697
10_H130_V0.134560.696
27_L116_K0.134220.694
123_R128_P0.13410.694
22_K31_E0.133250.689
77_E101_Q0.133240.689
68_S125_E0.1330.688
94_L125_E0.131820.682
53_E61_L0.131160.679
124_A127_I0.130990.678
34_D116_K0.129390.669
76_E102_E0.129130.668
50_R54_A0.127550.660
114_N130_V0.127460.659
31_E49_K0.127450.659
40_S102_E0.127350.659
86_A91_D0.127030.657
95_N98_L0.126930.657
9_L115_D0.126920.657
63_K77_E0.126410.654
4_D90_D0.126250.653
91_D95_N0.126140.653
71_V99_Y0.125990.652
1_Y78_I0.125740.650
26_P93_I0.12560.650
15_L22_K0.125570.650
23_I29_V0.125490.649
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
2dokA199.60.151
2wp8J0.932399.40.269
3i8oA0.917399.30.338
2hwyA0.939899.20.354
4ifdJ0.932399.20.357
3ix7A0.849699.20.358
1o4wA0.78298.90.432
2lcqA0.79798.70.473
2fe1A0.864798.60.504
1v8pA0.887298.50.515

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