GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Arm_2 - Armadillo-like
Pfam: PF04826 (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: 254
Sequences: 7015
Seq/Len: 27.62
HH_delta: 0.206 (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
30_Q65_D0.485162.486
158_L199_F0.434132.224
112_Q145_S0.42412.173
162_S202_N0.4222.162
155_L199_F0.407172.086
50_I55_G0.400012.050
59_I77_A0.375091.922
48_D52_D0.373191.912
82_S121_N0.361481.852
151_K186_S0.359791.843
144_S179_S0.359671.843
144_S182_S0.348071.783
139_L157_V0.342421.754
37_L77_A0.339991.742
18_L55_G0.339471.739
17_L33_A0.338621.735
170_E173_S0.338261.733
180_F199_F0.32861.684
71_R104_S0.3231.655
22_E61_S0.319211.636
20_L29_I0.311971.598
169_R173_S0.309461.586
16_K19_C0.307081.573
27_P67_N0.304431.560
41_A80_N0.300881.542
159_V199_F0.297011.522
35_I73_K0.296321.518
97_Q100_E0.296141.517
22_E58_L0.293931.506
140_L176_V0.28051.437
103_V138_D0.276041.414
49_I52_D0.271041.389
115_G119_L0.267341.370
153_Q156_K0.265931.363
38_G41_A0.26421.354
162_S171_L0.262421.345
171_L176_V0.260261.333
65_D70_V0.260221.333
160_N202_N0.257741.321
112_Q115_G0.257671.320
195_R198_T0.256751.316
27_P30_Q0.256181.313
31_E35_I0.25341.298
112_Q116_L0.251041.286
170_E174_A0.250811.285
117_R120_T0.24961.279
18_L58_L0.249321.277
145_S150_T0.248781.275
117_R153_Q0.248541.273
109_S112_Q0.248191.272
72_E108_N0.246541.263
121_N160_N0.241461.237
179_S182_S0.240451.232
41_A50_I0.237721.218
61_S64_N0.236861.214
30_Q33_A0.23671.213
154_V157_V0.235221.205
156_K195_R0.233171.195
78_L118_L0.233111.194
35_I76_N0.228851.173
31_E67_N0.228481.171
96_P100_E0.227651.166
168_T206_N0.227271.164
71_R74_A0.225331.155
139_L154_V0.224481.150
34_L77_A0.220811.131
38_G77_A0.220751.131
142_L150_T0.220741.131
15_Q20_L0.22061.130
159_V162_S0.219791.126
182_S185_N0.218531.120
180_F196_V0.218181.118
193_L197_L0.216851.111
97_Q101_E0.216611.110
79_N117_R0.215291.103
117_R121_N0.21431.098
34_L59_I0.211251.082
75_L118_L0.209871.075
15_Q19_C0.208411.068
83_V121_N0.20781.065
58_L61_S0.207481.063
74_A77_A0.206941.060
178_S182_S0.206631.059
14_L40_S0.206411.058
113_L147_S0.205851.055
79_N82_S0.20511.051
23_S29_I0.204721.049
159_V198_T0.203991.045
27_P65_D0.203981.045
116_L157_V0.203711.044
123_T160_N0.202911.040
34_L73_K0.202041.035
143_L158_L0.201951.035
90_Q93_M0.201781.034
34_L62_L0.200411.027
120_T157_V0.199271.021
184_F193_L0.199241.021
116_L154_V0.199211.021
35_I39_N0.198281.016
43_F46_N0.197561.012
186_S193_L0.197051.010
32_K73_K0.1971.009
186_S192_N0.196551.007
33_A36_A0.196021.004
57_S61_S0.195871.004
88_Q91_I0.194960.999
31_E69_S0.194340.996
13_E16_K0.194220.995
196_V199_F0.193870.993
155_L183_L0.192040.984
70_V77_A0.1920.984
169_R172_L0.191430.981
75_L115_G0.1910.979
19_C22_E0.190120.974
120_T156_K0.189310.970
156_K159_V0.187890.963
36_A39_N0.187340.960
194_L198_T0.185670.951
103_V141_S0.185080.948
98_V118_L0.184810.947
62_L70_V0.184370.945
100_E103_V0.184330.944
155_L179_S0.183970.943
31_E70_V0.18320.939
155_L196_V0.182910.937
160_N163_E0.182240.934
198_T201_E0.182230.934
38_G73_K0.182150.933
144_S175_Q0.181650.931
47_Q51_R0.180990.927
194_L197_L0.180390.924
95_I119_L0.180340.924
29_I33_A0.180330.924
31_E73_K0.18020.923
128_Y131_M0.179230.918
73_K76_N0.178920.917
39_N80_N0.177290.908
54_G57_S0.177230.908
134_N137_P0.177050.907
49_I53_L0.176450.904
22_E54_G0.175720.900
138_D141_S0.175050.897
196_V200_F0.175050.897
138_D142_L0.174650.895
51_R54_G0.174420.894
192_N203_I0.173640.890
177_L200_F0.173490.889
65_D71_R0.172790.885
44_P84_N0.171950.881
136_I158_L0.171520.879
198_T203_I0.171250.877
20_L183_L0.171090.877
63_L78_L0.171030.876
44_P47_Q0.170910.876
187_S193_L0.170620.874
142_L145_S0.169870.870
114_A117_R0.169590.869
20_L23_S0.169570.869
137_P170_E0.169220.867
91_I94_Y0.168960.866
175_Q178_S0.16860.864
72_E75_L0.168480.863
34_L70_V0.168370.863
109_S113_L0.168160.862
164_N167_M0.166890.855
59_I120_T0.166420.853
184_F200_F0.165940.850
39_N76_N0.164880.845
28_F31_E0.164740.844
198_T202_N0.164660.844
155_L195_R0.163890.840
42_A83_V0.163810.839
32_K35_I0.163770.839
72_E79_N0.163370.837
160_N198_T0.162570.833
98_V115_G0.162550.833
195_R199_F0.161950.830
17_L59_I0.16180.829
150_T154_V0.161560.828
47_Q83_V0.160760.824
87_N91_I0.160320.821
102_T184_F0.16010.820
152_V189_S0.159820.819
68_P108_N0.15970.818
116_L120_T0.159670.818
190_K193_L0.159580.818
157_V161_L0.159480.817
38_G159_V0.159390.817
99_C138_D0.158660.813
117_R156_K0.158550.812
42_A80_N0.158070.810
59_I74_A0.15790.809
76_N80_N0.156440.802
175_Q179_S0.156320.801
30_Q70_V0.156320.801
201_E204_N0.155890.799
55_G77_A0.15560.797
38_G76_N0.15540.796
51_R56_I0.155220.795
41_A77_A0.154920.794
76_N114_A0.154060.789
18_L53_L0.154050.789
102_T115_G0.153910.789
100_E104_S0.153740.788
42_A47_Q0.153450.786
89_E101_E0.153450.786
167_M170_E0.153380.786
36_A40_S0.153020.784
76_N117_R0.152890.783
172_L175_Q0.152110.779
66_P71_R0.151980.779
123_T162_S0.151340.775
108_N111_V0.15130.775
197_L201_E0.150820.773
191_E195_R0.149720.767
120_T123_T0.149690.767
152_V192_N0.149510.766
95_I99_C0.149460.766
26_D29_I0.149330.765
114_A118_L0.149140.764
151_K192_N0.149110.764
79_N83_V0.148960.763
149_K191_E0.148610.761
148_E189_S0.148580.761
156_K198_T0.148450.761
153_Q159_V0.147220.754
48_D84_N0.147010.753
45_F69_S0.146650.751
70_V74_A0.146480.751
203_I207_I0.146240.749
159_V195_R0.146160.749
60_G94_Y0.146030.748
142_L154_V0.145940.748
133_A137_P0.145630.746
161_L164_N0.144820.742
116_L138_D0.144820.742
98_V101_E0.14480.742
62_L65_D0.144720.742
183_L192_N0.144620.741
171_L174_A0.144460.740
120_T153_Q0.144310.739
145_S151_K0.144060.738
183_L196_V0.143690.736
177_L180_F0.143610.736
161_L168_T0.143440.735
102_T189_S0.143330.734
64_N97_Q0.143140.733
136_I170_E0.143080.733
155_L180_F0.142820.732
117_R123_T0.142680.731
167_M171_L0.142430.730
93_M96_P0.141810.727
109_S150_T0.14180.727
202_N205_E0.141770.726
73_K77_A0.141720.726
28_F32_K0.141170.723
15_Q53_L0.141080.723
25_E146_G0.140710.721
29_I39_N0.140410.719
86_E92_K0.139560.715
176_V179_S0.139230.713
34_L74_A0.138760.711
41_A83_V0.138740.711
30_Q66_P0.138660.710
123_T135_Y0.137960.707
78_L91_I0.137850.706
109_S147_S0.137650.705
85_D88_Q0.137160.703
87_N90_Q0.136960.702
48_D51_R0.136940.702
48_D85_D0.136860.701
16_K20_L0.136750.701
125_T130_H0.13640.699
178_S185_N0.136220.698
82_S132_L0.136160.698
65_D74_A0.135790.696
37_L41_A0.135410.694
35_I38_G0.135390.694
30_Q34_L0.135290.693
68_P72_E0.134530.689
155_L192_N0.134480.689
62_L74_A0.134190.688
43_F84_N0.134040.687
153_Q195_R0.133290.683
27_P31_E0.132960.681
127_D186_S0.132840.681
14_L67_N0.132830.681
191_E194_L0.132780.680
76_N200_F0.132620.680
32_K69_S0.132360.678
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
3nowA0.933199.90.206
3nmzA0.933199.90.233
3nmwA0.933199.90.237
3ul1B0.93799.90.251
3tpoA0.925299.90.255
1xm9A0.956799.90.255
3ul1B0.925299.90.257
4b8jA0.929199.90.267
3nowA0.925299.90.269
4b8jA0.933199.90.272

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