GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
CagE_TrbE_VirB - CagE TrbE VirB family component of type IV transporter system
Pfam: PF03135 (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: 205
Sequences: 1117
Seq/Len: 5.45
HH_delta: 0.938 (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
153_I170_V0.258333.162
157_A163_L0.254043.109
67_A167_V0.231772.836
95_I153_I0.218242.671
159_D162_E0.216832.654
64_R158_D0.208432.551
99_F147_G0.199812.445
157_A162_E0.195172.389
67_A183_R0.176452.159
157_A166_K0.173652.125
55_I66_P0.170142.082
115_Q133_D0.155111.898
68_I154_V0.152421.865
21_H25_N0.150671.844
70_S184_E0.146031.787
117_Q122_D0.140041.714
184_E187_N0.132231.618
54_T160_P0.124731.526
85_I173_A0.1231.505
160_P164_D0.122921.504
91_F155_V0.122821.503
23_L94_I0.12241.498
11_L15_E0.121641.489
116_N122_D0.118081.445
163_L167_V0.116261.423
84_D88_D0.116031.420
94_I195_Q0.115671.416
50_F66_P0.11521.410
97_Q151_F0.114031.396
98_S150_H0.113211.386
147_G198_G0.112181.373
127_S137_D0.111661.367
50_F189_E0.111641.366
118_L123_D0.110851.357
63_E158_D0.108611.329
18_E30_P0.107081.310
141_S144_V0.106831.307
69_L167_V0.105691.293
116_N123_D0.104411.278
66_P156_F0.104051.273
12_W15_E0.101531.243
160_P163_L0.099871.222
92_E189_E0.098871.210
50_F55_I0.098641.207
167_V183_R0.097641.195
139_L146_F0.097091.188
158_D162_E0.096441.180
174_L181_A0.096151.177
95_I151_F0.096051.175
97_Q149_Y0.095831.173
84_D87_L0.095011.163
110_F113_R0.094691.159
107_A136_L0.093251.141
138_E143_R0.093141.140
71_I74_Y0.092311.130
21_H62_G0.092011.126
104_K142_G0.091991.126
184_E191_A0.09171.122
103_W179_F0.091591.121
87_L97_Q0.090761.111
91_F166_K0.090271.105
65_Y160_P0.089711.098
69_L181_A0.089591.096
26_G117_Q0.089291.093
72_K180_V0.088871.088
92_E166_K0.088631.085
67_A164_D0.087811.075
49_P125_A0.087161.067
95_I100_R0.087081.066
15_E30_P0.087081.066
137_D141_S0.085631.048
112_K136_L0.084181.030
52_G55_I0.084141.030
98_S147_G0.08411.029
44_A142_G0.083721.025
117_Q123_D0.083611.023
102_I148_Y0.082611.011
183_R186_L0.082451.009
135_A146_F0.081520.998
25_N45_T0.081440.997
159_D163_L0.08130.995
71_I145_S0.081240.994
154_V195_Q0.08080.989
21_H29_H0.080750.988
109_K165_D0.080560.986
71_I153_I0.080120.981
78_T84_D0.078910.966
189_E193_F0.078760.964
10_G14_S0.078340.959
20_L139_L0.07810.956
94_I156_F0.077990.954
142_G157_A0.077980.954
89_L166_K0.077790.952
150_H195_Q0.077280.946
84_D104_K0.077130.944
107_A111_L0.077080.943
99_F146_F0.076540.937
19_F84_D0.076370.935
67_A157_A0.076270.933
120_S165_D0.076090.931
75_P138_E0.076010.930
23_L132_L0.075760.927
80_P198_G0.075570.925
171_S183_R0.075490.924
124_D131_E0.075470.924
136_L139_L0.075140.920
173_A176_N0.07510.919
154_V171_S0.07490.917
134_D138_E0.074770.915
20_L43_L0.074640.913
27_E181_A0.07460.913
11_L118_L0.074540.912
42_Y92_E0.074450.911
96_T154_V0.07390.904
32_P99_F0.072960.893
171_S189_E0.072910.892
54_T65_Y0.072530.888
26_G65_Y0.072480.887
91_F170_V0.072480.887
46_S70_S0.072430.886
25_N46_S0.072370.886
45_T152_T0.072350.885
27_E134_D0.072310.885
130_E141_S0.072280.885
129_I136_L0.072130.883
134_D161_E0.072090.882
156_F169_E0.072070.882
132_L136_L0.071640.877
108_I136_L0.071620.877
28_W31_V0.071540.876
104_K180_V0.071490.875
98_S198_G0.071320.873
107_A139_L0.071240.872
14_S33_V0.071160.871
10_G13_Y0.071040.869
163_L188_A0.070930.868
11_L19_F0.070870.867
82_M103_W0.070560.864
14_S32_P0.070560.864
51_G54_T0.070520.863
93_F96_T0.070310.860
184_E188_A0.070060.857
18_E139_L0.070030.857
146_F191_A0.069540.851
134_D159_D0.069480.850
117_Q120_S0.069360.849
114_Q128_Q0.069320.848
21_H44_A0.068760.842
47_R189_E0.068650.840
164_D187_N0.068640.840
104_K176_N0.068580.839
21_H45_T0.068560.839
15_E19_F0.068440.838
187_N191_A0.068430.837
26_G156_F0.068380.837
130_E171_S0.068320.836
56_E148_Y0.068280.836
23_L195_Q0.068270.836
119_R122_D0.068230.835
25_N43_L0.068170.834
27_E113_R0.068080.833
19_F23_L0.067940.831
68_I93_F0.067420.825
49_P52_G0.067350.824
131_E134_D0.067340.824
106_K110_F0.067260.823
27_E51_G0.067250.823
88_D196_L0.067080.821
109_K119_R0.067030.820
40_D184_E0.066990.820
95_I195_Q0.06690.819
110_F178_G0.066810.818
51_G56_E0.066790.817
133_D139_L0.066750.817
94_I154_V0.066710.816
14_S29_H0.06650.814
99_F145_S0.06640.813
25_N42_Y0.066150.810
111_L161_E0.06610.809
105_Q159_D0.065990.808
160_P167_V0.065690.804
31_V155_V0.065490.801
65_Y73_E0.065380.800
26_G122_D0.065380.800
81_G84_D0.065380.800
184_E198_G0.065250.799
188_A192_F0.065240.798
161_E167_V0.065160.797
92_E114_Q0.064990.795
63_E120_S0.064960.795
103_W106_K0.064910.794
112_K119_R0.064880.794
29_H38_Y0.064850.794
12_W161_E0.064810.793
194_S199_N0.064750.792
118_L122_D0.06470.792
124_D128_Q0.064620.791
108_I112_K0.064550.790
143_R161_E0.064510.789
39_L42_Y0.064340.787
166_K169_E0.064320.787
65_Y159_D0.064220.786
174_L179_F0.06420.786
164_D184_E0.064170.785
92_E170_V0.063940.783
48_V55_I0.063930.782
107_A197_P0.063920.782
81_G137_D0.063780.781
80_P191_A0.063770.780
17_L109_K0.063760.780
85_I112_K0.063730.780
36_G180_V0.063590.778
70_S152_T0.06350.777
15_E66_P0.063020.771
136_L140_A0.063010.771
158_D161_E0.062860.769
72_K182_V0.062830.769
109_K170_V0.062780.768
53_D185_T0.062670.767
178_G187_N0.062650.767
28_W112_K0.06260.766
188_A193_F0.062590.766
40_D43_L0.062530.765
99_F125_A0.062410.764
25_N173_A0.062360.763
16_L70_S0.062010.759
76_E103_W0.061930.758
162_E166_K0.061930.758
63_E160_P0.061860.757
21_H32_P0.061830.757
32_P35_R0.06180.756
175_N181_A0.061790.756
143_R196_L0.061790.756
34_P40_D0.06160.754
44_A69_L0.061570.754
135_A142_G0.061360.751
136_L152_T0.06130.750
25_N44_A0.061290.750
128_Q147_G0.061270.750
125_A135_A0.061080.748
75_P88_D0.061020.747
47_R183_R0.060970.746
16_L19_F0.060960.746
102_I110_F0.060920.746
85_I111_L0.060690.743
42_Y111_L0.060590.742
115_Q132_L0.060470.740
43_L138_E0.060440.740
64_R159_D0.060360.739
117_Q121_S0.060330.738
155_V167_V0.060320.738
98_S125_A0.060270.738
155_V170_V0.060230.737
20_L51_G0.060210.737
48_V103_W0.060210.737
168_A183_R0.060150.736
38_Y128_Q0.060130.736
106_K113_R0.059940.734
141_S183_R0.059780.732
21_H71_I0.059650.730
75_P154_V0.059620.730
68_I164_D0.059550.729
66_P192_F0.059550.729
116_N120_S0.059520.728
39_L159_D0.059520.728
79_R131_E0.059520.728
34_P174_L0.059480.728
131_E174_L0.059350.726
16_L80_P0.059310.726
33_V56_E0.059240.725
105_Q156_F0.059180.724
115_Q129_I0.059140.724
13_Y16_L0.059120.724
77_E186_L0.059060.723
192_F198_G0.0590.722
27_E30_P0.058880.721
120_S146_F0.058840.720
11_L104_K0.05850.716
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:
PDB Cov Prob HH_delta
4emeA0.29279.50.938
2hiyA0.46838.80.938
2l69A0.25378.30.939
2rjzA0.41958.10.939
3umfA0.7615.20.944
1ug8A0.26835.20.944
3ramA0.37564.60.945
2jvfA0.46344.20.946
4dndA0.634140.947
1ytrA0.12683.90.947
If you are interested in a protein containing this domain,
drop us a note and we'll try to predict the structure for you.

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