GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Zeta_toxin - Zeta toxin
Pfam: PF06414 (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: CL0023
Length: 199
Sequences: 2453
Seq/Len: 12.33
HH_delta: 0.373 (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
133_L136_E0.523884.221
17_L115_A0.283812.287
158_E162_R0.281742.270
23_Q134_S0.26892.167
135_I161_D0.248782.005
58_D61_E0.232981.877
22_G27_G0.226161.822
136_E140_Q0.216821.747
22_G25_G0.213551.721
22_G28_K0.209261.686
88_Y91_E0.19591.578
51_E54_Q0.195521.575
129_V134_S0.192711.553
88_Y92_N0.180681.456
87_E109_R0.177631.431
156_P159_K0.175171.411
87_E91_E0.170811.376
157_E161_D0.17081.376
74_T77_E0.162551.310
163_A167_L0.161191.299
50_D141_R0.158131.274
77_E81_L0.157241.267
140_Q144_E0.156981.265
90_I93_R0.156071.258
135_I157_E0.155811.255
15_P93_R0.155781.255
87_E114_E0.154581.246
142_Y160_H0.153681.238
20_I83_E0.153671.238
133_L137_R0.153121.234
30_T137_R0.152911.232
169_E172_E0.152891.232
165_A168_P0.152511.229
140_Q143_E0.151831.223
81_L84_K0.149061.201
131_P135_I0.148611.197
34_Q37_E0.148571.197
132_E136_E0.148221.194
47_I82_A0.14531.171
100_G103_S0.145241.170
127_V134_S0.145221.170
137_R141_R0.144331.163
26_S129_V0.143191.154
54_Q59_Y0.14061.133
128_A171_L0.140491.132
79_S82_A0.138731.118
165_A169_E0.138551.116
20_I32_A0.137481.108
53_R99_E0.1371.104
15_P77_E0.136741.102
25_G138_V0.136711.102
31_L127_V0.136541.100
16_T123_E0.136271.098
169_E173_A0.135561.092
19_I100_G0.135321.090
53_R82_A0.134951.087
166_N170_T0.134131.081
24_P100_G0.133761.078
104_N107_K0.133041.072
130_P133_L0.132161.065
20_I99_E0.131671.061
102_L108_L0.131221.057
160_H163_A0.131211.057
132_E157_E0.13061.052
35_L39_F0.130531.052
26_S134_S0.131.047
106_S109_R0.129231.041
23_Q128_A0.12871.037
18_I123_E0.128581.036
99_E102_L0.128031.032
35_L138_V0.12741.027
76_K83_E0.125691.013
131_P165_A0.125641.012
113_R116_K0.125571.012
167_L171_L0.125111.008
32_A97_I0.12511.008
43_G95_N0.125051.008
101_T107_K0.1240.999
155_V160_H0.123720.997
34_Q38_E0.122970.991
166_N173_A0.122440.987
170_T174_L0.122010.983
134_S138_V0.120980.975
19_I134_S0.120930.974
89_A96_I0.120770.973
136_E139_R0.120540.971
126_Y171_L0.120270.969
26_S125_Y0.119780.965
74_T79_S0.119410.962
104_N109_R0.118650.956
82_A86_I0.117870.950
155_V159_K0.117590.947
109_R113_R0.117480.947
21_A124_L0.117450.946
24_P99_E0.117290.945
130_P136_E0.117160.944
24_P101_T0.117090.943
84_K173_A0.117040.943
44_I95_N0.116220.936
48_D99_E0.114990.927
16_T169_E0.114510.923
24_P53_R0.114170.920
73_L76_K0.113780.917
135_I171_L0.113730.916
112_I116_K0.113720.916
22_G26_S0.113540.915
111_L115_A0.113440.914
18_I175_E0.112870.909
29_S33_R0.112870.909
37_E55_F0.112770.909
33_R91_E0.112390.906
155_V163_A0.112280.905
36_L46_V0.112220.904
48_D102_L0.111910.902
19_I101_T0.111580.899
94_Y140_Q0.11120.896
21_A99_E0.110890.893
159_K162_R0.110850.893
76_K79_S0.110380.889
53_R78_A0.110270.888
21_A24_P0.110080.887
18_I125_Y0.107930.870
154_F157_E0.107290.864
76_K80_R0.107250.864
49_A86_I0.107240.864
34_Q140_Q0.106690.860
66_D69_E0.106380.857
84_K88_Y0.106250.856
37_E140_Q0.106130.855
136_E144_E0.106090.855
135_I139_R0.106060.855
39_F97_I0.105740.852
139_R162_R0.105710.852
67_P70_A0.105610.851
51_E101_T0.105520.850
108_L140_Q0.105040.846
66_D70_A0.104940.846
97_I139_R0.104720.844
80_R84_K0.104650.843
116_K169_E0.10440.841
90_I115_A0.104220.840
52_F56_H0.104180.839
72_E86_I0.104150.839
47_I123_E0.104010.838
82_A99_E0.10360.835
44_I52_F0.10360.835
86_I98_F0.103480.834
57_P158_E0.103330.833
53_R100_G0.103330.833
38_E132_E0.103260.832
48_D101_T0.103240.832
137_R152_G0.103120.831
91_E176_N0.103050.830
135_I138_V0.102810.828
159_K163_A0.102520.826
74_T86_I0.102360.825
98_F103_S0.102280.824
92_N122_V0.102020.822
83_E159_K0.101660.819
36_L39_F0.101260.816
56_H137_R0.10070.811
102_L111_L0.100680.811
94_Y118_A0.10040.809
26_S101_T0.100160.807
86_I90_I0.099770.804
61_E162_R0.099730.804
105_P143_E0.09960.803
18_I44_I0.09930.800
23_Q137_R0.099260.800
24_P102_L0.098390.793
105_P111_L0.098310.792
19_I103_S0.098260.792
127_V160_H0.097840.788
45_V135_I0.097670.787
114_E118_A0.097630.787
131_P171_L0.09760.786
30_T141_R0.09750.786
49_A100_G0.097110.782
61_E64_K0.097020.782
16_T121_K0.096990.781
23_Q89_A0.096970.781
26_S127_V0.096820.780
91_E94_Y0.096740.779
21_A171_L0.096710.779
29_S101_T0.096590.778
32_A46_V0.096570.778
152_G164_Y0.096430.777
102_L124_L0.096090.774
158_E161_D0.095510.770
142_Y153_R0.095480.769
33_R136_E0.095210.767
123_E169_E0.094880.764
142_Y145_G0.094530.762
19_I121_K0.09440.761
29_S82_A0.09430.760
31_L34_Q0.094290.760
128_A169_E0.094190.759
84_K154_F0.093980.757
33_R36_L0.093940.757
158_E165_A0.093690.755
38_E113_R0.093580.754
100_G138_V0.093310.752
51_E107_K0.093280.752
30_T156_P0.092830.748
153_R163_A0.092830.748
142_Y154_F0.092730.747
116_K165_A0.092630.746
113_R139_R0.092510.745
51_E173_A0.09230.744
25_G28_K0.092170.743
94_Y106_S0.091950.741
34_Q143_E0.091940.741
90_I96_I0.091720.739
132_E135_I0.091280.735
129_V133_L0.091110.734
35_L79_S0.09110.734
17_L120_Y0.090870.732
79_S83_E0.090740.731
84_K139_R0.090620.730
58_D64_K0.090430.729
126_Y167_L0.090290.728
24_P163_A0.090190.727
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
1gvnB0.959899.90.373
2p5tB0.979999.80.437
1ltqA0.864399.70.495
3zvlA0.824199.60.51
1ly1A0.819199.60.523
3a4mA0.819199.60.531
3umfA0.914699.60.536
3sr0A0.904599.60.537
2cdnA0.914699.50.55
3dl0A0.909599.50.551

Page generated in 0.2786 seconds.