GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
PhageMin_Tail - Phage-related minor tail protein
Pfam: PF10145 (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. )
Length: 202
Sequences: 1093
Seq/Len: 5.41
HH_delta: 0.887 (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
54_D57_E0.317862.707
172_K180_D0.305972.606
23_A41_T0.303342.583
78_E116_E0.297172.531
7_E11_K0.284322.421
173_S176_D0.258162.198
93_S96_D0.250732.135
100_A122_L0.248832.119
53_S58_A0.234882.000
82_Q116_E0.229331.953
166_D170_K0.221121.883
150_S153_A0.209241.782
158_K163_S0.204141.738
78_E82_Q0.203031.729
151_K155_K0.194921.660
25_E28_S0.191011.627
23_A36_A0.190011.618
17_T21_E0.18791.600
32_S35_E0.182531.554
90_G123_A0.181741.548
18_E21_E0.179451.528
68_A105_G0.175281.493
19_L45_A0.175261.492
11_K42_E0.173551.478
34_K39_E0.172491.469
180_D183_K0.171241.458
66_M71_L0.167751.429
172_K176_D0.167561.427
85_A89_N0.16481.403
167_A170_K0.163951.396
141_S144_S0.163371.391
156_A159_K0.162731.386
24_Y28_S0.160681.368
70_G109_K0.157271.339
189_D192_Q0.156611.334
103_R133_S0.156351.331
72_S75_D0.156011.329
57_E95_E0.155981.328
42_E46_K0.155611.325
86_A119_A0.153341.306
33_D36_A0.151221.288
16_A20_A0.150981.286
121_L174_P0.150791.284
124_A128_A0.149391.272
176_D180_D0.149381.272
172_K177_I0.146221.245
62_L76_A0.145551.239
171_F177_I0.14541.238
169_G177_I0.144321.229
166_D169_G0.14431.229
183_K186_K0.144251.228
180_D184_A0.144241.228
107_A140_K0.144211.228
22_A55_A0.143691.224
170_K190_D0.142361.212
82_Q119_A0.140591.197
51_T58_A0.140291.195
104_V118_L0.140291.195
108_A118_L0.139721.190
92_A97_L0.139541.188
153_A157_L0.138021.175
84_A87_S0.136821.165
87_S94_V0.135091.150
9_S12_T0.134831.148
154_Q158_K0.134771.148
36_A41_T0.134351.144
92_A96_D0.133911.140
99_E133_S0.132921.132
132_A136_G0.132731.130
21_E56_E0.131751.122
163_S166_D0.131591.121
99_E102_Q0.131521.120
150_S157_L0.130671.113
64_K129_G0.130521.111
53_S57_E0.130231.109
28_S88_Q0.130091.108
114_S117_E0.129491.103
86_A123_A0.128871.097
137_T140_K0.128511.094
137_T141_S0.128371.093
163_S172_K0.126151.074
27_A36_A0.125261.067
47_L58_A0.124621.061
86_A97_L0.123981.056
98_A102_Q0.121571.035
9_S16_A0.120911.030
76_A80_L0.118141.006
157_L162_I0.117441.000
60_K131_S0.117350.999
26_L40_F0.117340.999
186_K191_A0.117250.998
44_A62_L0.117070.997
21_E24_Y0.117040.997
31_I40_F0.116910.996
71_L75_D0.116260.990
9_S14_Q0.11560.984
43_A66_M0.115430.983
14_Q49_K0.114840.978
100_A126_A0.113960.970
179_E183_K0.113850.970
126_A131_S0.113380.966
87_S97_L0.112530.958
177_I180_D0.112520.958
8_L12_T0.112440.958
181_L184_A0.112210.956
188_M192_Q0.112170.955
103_R140_K0.111810.952
125_L135_A0.110030.937
85_A88_Q0.109910.936
175_E179_E0.109820.935
6_L9_S0.109790.935
25_E59_A0.109680.934
134_E138_A0.109270.931
117_E175_E0.108950.928
152_E156_A0.108630.925
7_E10_R0.108510.924
118_L122_L0.108410.923
43_A77_E0.108390.923
162_I176_D0.108340.923
64_K131_S0.108220.922
60_K91_G0.107130.912
43_A80_L0.106560.907
121_L139_L0.106310.905
47_L94_V0.106280.905
82_Q115_F0.105580.899
70_G112_G0.105170.896
79_A135_A0.105170.896
106_P130_G0.105030.894
134_E140_K0.104790.892
6_L10_R0.104620.891
25_E64_K0.104580.891
124_A142_F0.104560.890
158_K161_G0.104480.890
93_S126_A0.10420.887
6_L16_A0.103720.883
58_A94_V0.10360.882
8_L15_S0.103420.881
25_E91_G0.103250.879
79_A115_F0.103190.879
133_S137_T0.102730.875
13_G49_K0.10270.875
165_R191_A0.102680.874
157_L164_V0.102390.872
170_K177_I0.102030.869
12_T29_A0.101850.867
46_K49_K0.101690.866
82_Q114_S0.101330.863
18_E24_Y0.10130.863
93_S141_S0.101070.861
92_A123_A0.101050.861
26_L41_T0.101030.860
22_A26_L0.100810.858
65_L79_A0.100630.857
8_L19_L0.100310.854
59_A63_A0.100180.853
168_K172_K0.100080.852
31_I36_A0.099930.851
9_S19_L0.09980.850
50_A135_A0.099570.848
145_R150_S0.099460.847
184_A187_K0.099210.845
103_R134_E0.098970.843
167_A175_E0.098960.843
188_M191_A0.098960.843
144_S148_K0.09890.842
81_D85_A0.098640.840
84_A88_Q0.098520.839
12_T19_L0.098510.839
61_A98_A0.098360.838
148_K152_E0.098070.835
6_L11_K0.097130.827
67_N131_S0.09710.827
64_K91_G0.09670.823
39_E43_A0.096690.823
33_D37_L0.096620.823
8_L13_G0.096580.822
155_K159_K0.096380.821
12_T15_S0.096150.819
8_L41_T0.096130.819
62_L65_L0.095990.817
155_K158_K0.095840.816
117_E120_A0.095780.816
26_L31_I0.095720.815
45_A55_A0.095410.812
145_R153_A0.09540.812
60_K64_K0.095030.809
157_L163_S0.094840.808
41_T44_A0.094770.807
126_A136_G0.094530.805
101_M118_L0.094050.801
48_A101_M0.093790.799
7_E70_G0.093490.796
83_L119_A0.093460.796
125_L130_G0.093310.795
67_N88_Q0.093090.793
14_Q55_A0.09280.790
150_S154_Q0.092660.789
108_A115_F0.092130.785
37_L121_L0.09210.784
86_A147_T0.091960.783
20_A23_A0.091910.783
60_K63_A0.091680.781
172_K187_K0.091380.778
181_L185_L0.091320.778
8_L42_E0.091080.776
20_A112_G0.09070.772
162_I177_I0.090650.772
165_R174_P0.090550.771
148_K153_A0.09010.767
80_L97_L0.090070.767
65_L101_M0.08990.766
179_E192_Q0.089650.763
168_K190_D0.08940.761
55_A58_A0.089050.758
91_G137_T0.088730.756
162_I180_D0.088580.754
115_F118_L0.08810.750
160_L186_K0.08780.748
101_M119_A0.087410.744
14_Q48_A0.087360.744
111_A118_L0.087320.744
124_A127_Q0.087030.741
165_R189_D0.086580.737
22_A45_A0.086080.733
182_A185_L0.086060.733
40_F76_A0.0860.732
150_S156_A0.085960.732
16_A22_A0.085850.731
115_F122_L0.085450.728
176_D179_E0.085280.726
70_G116_E0.085120.725
142_F146_L0.085050.724
28_S91_G0.084360.718
43_A62_L0.084260.718
57_E60_K0.084230.717
11_K18_E0.084040.716
104_V163_S0.083990.715
135_A138_A0.083910.715
57_E152_E0.083740.713
26_L62_L0.08370.713
18_E162_I0.083160.708
168_K171_F0.0830.707
100_A136_G0.082930.706
167_A172_K0.082860.706
53_S130_G0.082750.705
104_V113_V0.082710.704
100_A132_A0.082660.704
171_F176_D0.082580.703
50_A61_A0.082570.703
83_L98_A0.082560.703
111_A143_L0.082390.702
165_R170_K0.082380.702
104_V108_A0.082230.700
47_L84_A0.082180.700
68_A81_D0.082070.699
99_E103_R0.082060.699
31_I73_A0.082030.699
154_Q180_D0.081530.694
138_A142_F0.081340.693
69_F108_A0.081280.692
97_L122_L0.081230.692
44_A58_A0.081220.692
137_T143_L0.0810.690
164_V177_I0.080920.689
55_A97_L0.080910.689
116_E120_A0.080810.688
34_K44_A0.080750.688
61_A94_V0.080750.688
11_K116_E0.08070.687
157_L167_A0.080640.687
125_L129_G0.080550.686
25_E60_K0.080280.684
14_Q19_L0.079870.680
102_Q105_G0.079810.680
29_A91_G0.079790.679
13_G45_A0.079680.679
28_S64_K0.079660.678
119_A122_L0.079630.678
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
2ch7A0.881275.80.887
2ch7A0.722845.80.906
3nftA0.950542.90.907
3gwkC0.485137.40.91
3zbhA0.490137.10.91
4j42A0.460431.10.914
3g67A0.925730.90.914
4i0xB0.509930.70.914
1brwA0.90128.10.916
1khdA0.876226.10.917
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