GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Tetraspannin - Tetraspanin family
Pfam: PF00335 (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: CL0347
Length: 221
Sequences: 2096
Seq/Len: 9.48
HH_delta: 0.705 (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
198_I202_A0.431373.298
179_R184_K0.348822.667
89_E207_Q0.33722.578
130_D133_Q0.310052.370
73_C77_I0.309542.366
133_Q147_W0.293332.242
18_L22_G0.290982.224
22_G26_W0.290322.219
116_M119_Y0.280752.146
97_F197_G0.274422.098
4_Y7_F0.262362.006
3_K70_K0.257261.967
79_I211_I0.251921.926
91_V95_V0.249661.909
94_I98_S0.249541.908
25_I29_V0.247681.893
47_I51_F0.244161.867
7_F10_N0.239831.833
24_G53_G0.238491.823
119_Y130_D0.237661.817
17_G56_I0.230451.762
21_I25_I0.214321.638
83_I211_I0.210551.610
10_N78_Y0.208811.596
211_I215_C0.208031.590
129_W141_V0.20681.581
3_K7_F0.203231.554
3_K14_L0.201511.541
6_L10_N0.199411.524
26_W47_I0.194071.484
24_G46_I0.192321.470
14_L60_S0.190771.458
130_D180_G0.189531.449
211_I217_L0.18791.436
64_C70_K0.184581.411
79_I83_I0.183551.403
3_K6_L0.182211.393
76_I80_I0.181671.389
120_N126_S0.180151.377
50_I54_I0.178351.363
113_L117_K0.1771.353
194_K198_I0.176951.353
130_D147_W0.173931.330
79_I215_C0.172831.321
141_V182_Y0.172791.321
65_I74_L0.172721.320
182_Y186_R0.172331.317
61_F65_I0.171941.314
76_I218_C0.170661.305
209_I213_L0.17061.304
93_G204_L0.168141.285
214_A217_L0.167791.283
140_G146_D0.166871.276
6_L78_Y0.166611.274
137_E177_Y0.166111.270
210_G217_L0.165731.267
3_K10_N0.164091.254
95_V99_Y0.163321.249
22_G25_I0.162861.245
16_L19_A0.162811.245
97_F201_L0.162351.241
10_N14_L0.162221.240
15_L19_A0.160111.224
7_F14_L0.159261.218
195_Y199_V0.155491.189
5_I10_N0.154961.185
17_G53_G0.153981.177
139_C147_W0.152831.168
215_C218_C0.152131.163
72_R75_L0.150741.152
188_Y192_Y0.150481.150
211_I214_A0.150011.147
66_G75_L0.146941.123
21_I54_I0.146361.119
211_I218_C0.145011.109
3_K12_L0.14431.103
147_W177_Y0.143971.101
82_L89_E0.143851.100
63_G67_A0.141541.082
10_N13_F0.14081.076
61_F73_C0.140721.076
144_P147_W0.138431.058
139_C143_S0.137241.049
63_G66_G0.136361.042
195_Y198_I0.134781.030
146_D180_G0.133591.021
197_G201_L0.133481.020
4_Y13_F0.133051.017
115_C119_Y0.132571.013
63_G78_Y0.131621.006
97_F147_W0.131361.004
64_C67_A0.130680.999
60_S76_I0.129680.991
6_L14_L0.128950.986
62_L74_L0.128940.986
180_G207_Q0.128720.984
193_L196_I0.127760.977
210_G214_A0.127730.976
65_I71_N0.12720.972
92_V96_A0.126940.970
62_L75_L0.126540.967
3_K13_F0.125570.960
14_L64_C0.124750.954
8_F11_V0.12440.951
3_K11_V0.123690.946
142_N145_D0.123480.944
204_L210_G0.122940.940
16_L86_F0.122890.939
129_W133_Q0.122310.935
170_C173_E0.122080.933
136_F188_Y0.121970.932
130_D146_D0.121910.932
30_N33_Y0.12180.931
168_D171_S0.121760.931
24_G197_G0.121160.926
45_V95_V0.120750.923
11_V84_L0.12070.923
213_L218_C0.12040.920
79_I214_A0.120190.919
143_S146_D0.119770.916
214_A218_C0.119560.914
16_L89_E0.119540.914
208_L212_I0.11950.914
210_G215_C0.119280.912
9_L17_G0.118860.909
120_N123_E0.118480.906
2_L214_A0.118410.905
119_Y122_N0.118140.903
38_S41_F0.117740.900
119_Y170_C0.117640.899
174_N177_Y0.116990.894
111_L141_V0.116930.894
117_K170_C0.116870.893
72_R76_I0.116560.891
141_V146_D0.116310.889
187_E191_S0.115750.885
179_R189_L0.115360.882
213_L217_L0.11530.881
2_L213_L0.115170.880
53_G63_G0.115060.880
210_G213_L0.114750.877
179_R187_E0.114590.876
102_Q105_S0.114510.875
183_D187_E0.114360.874
184_K188_Y0.114020.872
86_F90_L0.11350.868
131_N135_K0.113360.867
7_F11_V0.113010.864
19_A52_I0.112720.862
26_W75_L0.112320.859
36_E66_G0.112290.858
192_Y203_I0.112110.857
7_F64_C0.111970.856
70_K73_C0.111930.856
144_P180_G0.11180.855
53_G78_Y0.111750.854
4_Y68_C0.111590.853
133_Q140_G0.111120.849
208_L211_I0.110990.848
114_R118_S0.110690.846
7_F68_C0.110410.844
37_F40_S0.109880.840
150_S153_S0.10980.839
139_C146_D0.109760.839
19_A96_A0.109630.838
82_L210_G0.109310.836
113_L116_M0.109020.833
201_L205_V0.1090.833
4_Y12_L0.108930.833
67_A70_K0.108260.828
92_V100_R0.10730.820
19_A22_G0.107150.819
20_L49_L0.107060.818
141_V180_G0.106810.817
11_V83_I0.106790.816
126_S130_D0.106630.815
173_E176_I0.106580.815
66_G74_L0.106130.811
147_W176_I0.105870.809
115_C118_S0.105820.809
59_I67_A0.10580.809
8_F55_F0.105660.808
185_L207_Q0.105510.807
52_I55_F0.105150.804
10_N63_G0.105030.803
180_G183_D0.104840.801
212_I216_C0.10480.801
152_W171_S0.104770.801
96_A204_L0.104620.800
36_E39_S0.104220.797
17_G60_S0.104210.797
64_C86_F0.104020.795
140_G180_G0.103950.795
144_P148_F0.103860.794
171_S174_N0.103750.793
208_L215_C0.10370.793
187_E190_R0.103660.792
27_L209_I0.103480.791
72_R95_V0.103440.791
199_V202_A0.103340.790
26_W60_S0.102880.786
114_R117_K0.102830.786
137_E140_G0.102370.783
40_S44_Y0.102130.781
61_F77_I0.102050.780
88_L92_V0.10190.779
4_Y9_L0.101780.778
40_S101_D0.101580.777
206_L212_I0.101560.776
139_C142_N0.101030.772
20_L82_L0.100650.769
113_L118_S0.100580.769
26_W30_N0.100530.769
208_L214_A0.100460.768
14_L57_L0.10020.766
87_V90_L0.100150.766
9_L14_L0.09950.761
79_I218_C0.099230.759
89_E133_Q0.099050.757
52_I85_L0.099030.757
24_G49_L0.098860.756
20_L28_L0.098830.756
53_G82_L0.098650.754
22_G47_I0.098570.754
147_W180_G0.098570.754
114_R122_N0.098440.753
102_Q133_Q0.098190.751
183_D186_R0.098130.750
36_E40_S0.09810.750
48_I100_R0.097890.748
58_I195_Y0.097740.747
52_I199_V0.097150.743
19_A23_V0.097020.742
14_L18_L0.096950.741
65_I84_L0.096620.739
119_Y133_Q0.096610.739
212_I217_L0.096320.736
104_N186_R0.095770.732
84_L194_K0.095680.731
14_L61_F0.095660.731
169_D173_E0.095470.730
56_I145_D0.095380.729
168_D173_E0.095380.729
185_L189_L0.095340.729
197_G200_S0.095310.729
170_C174_N0.095230.728
33_Y36_E0.094910.726
92_V199_V0.094840.725
169_D174_N0.094810.725
209_I216_C0.094510.723
62_L77_I0.094360.721
108_K142_N0.094320.721
212_I218_C0.094230.720
10_N60_S0.093950.718
18_L84_L0.093720.716
35_S43_S0.093490.715
92_V196_I0.093440.714
34_L114_R0.093360.714
90_L94_I0.093290.713
105_S109_D0.093110.712
125_F135_K0.093040.711
54_I90_L0.092770.709
169_D172_S0.09260.708
34_L40_S0.092360.706
86_F204_L0.092290.706
47_I60_S0.092180.705
69_R94_I0.091280.698
140_G143_S0.091130.697
4_Y14_L0.091060.696
36_E111_L0.091020.696
180_G184_K0.090930.695
114_R151_K0.090630.693
64_C73_C0.090560.692
55_F58_I0.090390.691
108_K132_I0.090250.690
8_F12_L0.090130.689
21_I148_F0.089790.686
31_N46_I0.089630.685
114_R119_Y0.089560.685
132_I185_L0.089470.684
49_L63_G0.089420.684
177_Y180_G0.089340.683
122_N126_S0.089320.683
2_L5_I0.089320.683
208_L213_L0.089280.683
66_G71_N0.089170.682
143_S147_W0.089160.682
208_L216_C0.089140.681
93_G100_R0.089080.681
61_F199_V0.089070.681
34_L37_F0.089040.681
2_L9_L0.088860.679
10_N66_G0.088840.679
168_D175_S0.088780.679
86_F207_Q0.088720.678
117_K151_K0.088440.676
58_I84_L0.088260.675
213_L216_C0.088190.674
212_I215_C0.088140.674
13_F56_I0.088080.673
37_F41_F0.088050.673
47_I88_L0.087940.672
133_Q139_C0.087860.672
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
1g8qA0.398298.90.705
4ev6A0.280520.30.931
2iubA0.280516.40.934
2ks1B0.176513.30.936
4i0uA0.280511.60.937
2jwaA0.17658.10.941
1iijA0.15844.50.948
3oduA0.35294.40.948
2k1aA0.18140.949
4h33A0.57923.70.95
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