GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
CLASP_N - CLASP N terminal
Pfam: PF12348 (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: CL0020
Length: 228
Sequences: 10586
Seq/Len: 46.43
HH_delta: 0.154 (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
148_R188_D1.016984.126
24_R64_D0.954163.871
18_E23_E0.639752.595
64_D69_V0.632572.566
142_S147_V0.49322.001
70_S105_D0.486381.973
63_S101_K0.470561.909
58_I76_L0.459651.865
182_L200_C0.456521.852
152_A185_L0.450271.827
111_R142_S0.442451.795
152_A200_C0.400361.624
149_E190_D0.400211.624
105_D110_I0.395941.606
20_D23_E0.3881.574
153_E196_A0.382861.553
137_S177_Q0.37871.536
25_V29_Q0.370131.502
21_W66_R0.369871.500
152_A197_A0.369791.500
32_R79_D0.369751.500
149_E192_E0.364161.477
29_Q72_T0.3581.452
135_I138_Q0.356891.448
181_A184_K0.355281.441
63_S98_P0.355171.441
17_S60_K0.351071.424
156_A200_C0.350791.423
136_L154_W0.343081.392
82_R120_A0.338591.374
32_R75_Q0.33691.367
72_T75_Q0.335421.361
160_E203_A0.328671.333
141_K184_K0.317381.288
105_D114_A0.317271.287
196_A199_E0.315961.282
71_K113_A0.314841.277
156_A199_E0.314381.275
35_I76_L0.31261.268
104_G135_I0.311031.262
78_S117_A0.310821.261
25_V66_R0.310111.258
188_D193_V0.302851.229
57_A60_K0.300791.220
36_K79_D0.299531.215
149_E196_A0.299011.213
139_G151_C0.297571.207
194_R197_A0.295361.198
25_V68_K0.295351.198
167_S170_Q0.293961.193
115_N154_W0.29361.191
67_S107_K0.290891.180
137_S141_K0.287881.168
32_R76_L0.28631.161
156_A203_A0.284591.155
46_D49_E0.283541.150
64_D70_S0.282251.145
53_Q56_D0.282151.145
108_K111_R0.281711.143
149_E153_E0.277891.127
134_E177_Q0.277741.127
199_E203_A0.276521.122
61_Q73_A0.276091.120
26_E30_K0.275091.116
74_C99_L0.274931.115
186_L201_L0.274441.113
111_R114_A0.273121.108
119_D153_E0.272661.106
108_K112_E0.27261.106
103_L118_L0.271461.101
28_L72_T0.270111.096
94_I97_P0.269211.092
145_P190_D0.266931.083
185_L197_A0.265761.078
60_K63_S0.265171.076
159_L203_A0.264631.074
79_D82_R0.264181.072
28_L61_Q0.262921.067
75_Q78_S0.262861.066
23_E30_K0.262781.066
29_Q33_S0.262431.065
188_D197_A0.262361.064
25_V72_T0.261241.060
184_K187_S0.259291.052
19_S23_E0.257991.047
17_S57_A0.254941.034
91_Y94_I0.253131.027
119_D157_I0.253131.027
45_P48_V0.252551.025
74_C102_K0.250581.017
71_K109_F0.249661.013
180_K184_K0.248661.009
130_K134_E0.248521.008
194_R198_R0.247981.006
150_E153_E0.247971.006
47_F50_C0.247071.002
28_L73_A0.246330.999
32_R72_T0.24630.999
140_L181_A0.245690.997
113_A116_N0.242910.985
203_A206_S0.24270.985
153_E199_E0.242480.984
21_W69_V0.242450.984
45_P49_E0.241850.981
115_N119_D0.240640.976
159_L169_L0.240460.976
111_R115_N0.239920.973
179_V201_L0.239540.972
108_K144_N0.239290.971
74_C117_A0.238950.969
183_V187_S0.238650.968
123_E157_I0.236170.958
120_A123_E0.235430.955
30_K34_L0.234110.950
62_L77_L0.234110.950
75_Q79_D0.233980.949
142_S148_R0.232580.944
78_S120_A0.231850.941
96_L100_L0.228270.926
186_L198_R0.227840.924
140_L155_L0.227290.922
148_R151_C0.22710.921
74_C78_S0.225640.915
98_P101_K0.225280.914
153_E156_A0.224870.912
21_W25_V0.224490.911
138_Q141_K0.22370.908
177_Q180_K0.222760.904
81_A120_A0.222610.903
142_S151_C0.222060.901
61_Q64_D0.221950.900
67_S71_K0.221780.900
191_P194_R0.221620.899
122_I157_I0.221430.898
103_L115_N0.221250.898
21_W26_E0.220340.894
196_A200_C0.219430.890
74_C114_A0.218810.888
64_D73_A0.217110.881
104_G138_Q0.216980.880
55_L79_D0.216370.878
122_I154_W0.216290.877
113_A117_A0.216280.877
202_W205_Y0.215920.876
71_K75_Q0.215090.873
88_F92_A0.213950.868
62_L73_A0.213060.864
133_L137_S0.212960.864
32_R35_I0.210180.853
29_Q32_R0.209750.851
50_C53_Q0.208250.845
176_K180_K0.207140.840
116_N120_A0.207070.840
198_R202_W0.206970.840
28_L32_R0.206810.839
70_S73_A0.204880.831
102_K114_A0.204620.830
23_E27_A0.204580.830
145_P149_E0.203660.826
81_A117_A0.203610.826
150_E154_W0.203540.826
152_A182_L0.202330.821
145_P188_D0.20230.821
84_L87_H0.200910.815
102_K110_I0.200090.812
139_G147_V0.199880.811
185_L188_D0.199750.810
105_D111_R0.199690.810
66_R69_V0.199570.810
38_N44_P0.198710.806
137_S181_A0.198670.806
28_L69_V0.197740.802
78_S116_N0.196720.798
127_Y130_K0.196230.796
137_S140_L0.196110.796
151_C154_W0.194680.790
149_E152_A0.194280.788
59_I62_L0.193790.786
100_L135_I0.192650.782
97_P101_K0.192520.781
119_D122_I0.192410.781
189_A202_W0.1920.779
68_K71_K0.191550.777
147_V150_E0.191260.776
25_V28_L0.19120.776
44_P48_V0.190990.775
195_E199_E0.190310.772
144_N147_V0.189890.770
153_E157_I0.189790.770
156_A160_E0.189460.769
112_E144_N0.18940.768
133_L155_L0.189270.768
99_L114_A0.188960.767
66_R70_S0.188650.765
30_K33_S0.188070.763
59_I63_S0.187930.762
96_L118_L0.18790.762
141_K181_A0.186880.758
183_V201_L0.186670.757
188_D194_R0.186460.756
62_L98_P0.185630.753
63_S104_G0.184660.749
180_K183_V0.184330.748
18_E24_R0.18430.748
185_L193_V0.184270.748
99_L109_F0.184080.747
182_L197_A0.183610.745
152_A196_A0.182830.742
89_E93_D0.182570.741
26_E29_Q0.182210.739
140_L151_C0.1820.738
66_R71_K0.181690.737
89_E92_A0.181360.736
148_R185_L0.181090.735
35_I80_L0.181070.735
148_R193_V0.180440.732
156_A159_L0.18040.732
110_I113_A0.179940.730
56_D60_K0.179440.728
19_S25_V0.179280.727
33_S79_D0.179050.726
107_K110_I0.178980.726
69_V73_A0.178940.726
99_L117_A0.178620.725
27_A30_K0.178510.724
121_I124_S0.178470.724
148_R152_A0.178380.724
81_A92_A0.178150.723
16_E27_A0.177520.720
78_S82_R0.177390.720
116_N119_D0.176020.714
49_E52_R0.175520.712
85_G124_S0.175370.711
112_E115_N0.175260.711
116_N150_E0.175120.710
44_P47_F0.174770.709
59_I95_L0.173750.705
98_P102_K0.1730.702
28_L58_I0.17280.701
145_P192_E0.1720.698
102_K105_D0.171270.695
68_K131_I0.171220.695
149_E197_A0.170410.691
186_L197_A0.169470.688
74_C113_A0.169360.687
26_E37_G0.169160.686
113_A120_A0.16880.685
198_R205_Y0.168370.683
155_L200_C0.167870.681
119_D154_W0.167310.679
147_V151_C0.167150.678
19_S24_R0.166860.677
111_R139_G0.166610.676
90_P94_I0.166460.675
191_P195_E0.166350.675
23_E26_E0.166310.675
18_E27_A0.166230.674
57_A61_Q0.16580.673
197_A201_L0.165490.671
55_L91_Y0.165170.670
24_R27_A0.165150.670
100_L103_L0.165090.670
28_L35_I0.164930.669
188_D201_L0.164620.668
56_D94_I0.164380.667
20_D24_R0.164280.666
161_K203_A0.164170.666
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
4k92A0.956199.90.154
2qk2A0.951899.90.163
2qk1A0.964999.90.169
3w3wA0.951899.80.229
4fddA0.951899.80.272
4fddA0.938699.80.28
4ffbC0.978199.80.283
3w3wA0.947499.70.292
1u6gC0.973799.70.299
1u6gC0.986899.70.304

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