GREMLIN Database
CagE_TrbE_VirB - CagE, TrbE, VirB family, component of type IV transporter system
PFAM: PF03135 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 205 (197)
Sequences: 4546 (2807)
Seq/√Len: 200.0
META: 0.791

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Sco Prob
157_D162_E4.2001.00
157_D166_K3.3271.00
55_L66_P2.9731.00
127_S137_D2.9711.00
159_D162_E2.8111.00
153_V170_V2.3321.00
68_I154_V2.2891.00
138_E143_R2.2571.00
56_E61_P2.2471.00
46_G51_G2.1971.00
157_D163_L2.1531.00
46_G49_P2.1261.00
67_G167_V2.1121.00
56_E60_A2.1011.00
51_G54_A2.0451.00
155_V163_L2.0391.00
21_H25_N2.0351.00
57_I60_A2.0181.00
57_I61_P1.9671.00
49_P54_A1.8561.00
139_L146_F1.8221.00
18_E30_P1.8181.00
56_E59_G1.8121.00
14_S33_L1.7911.00
199_N202_A1.7761.00
104_R107_A1.7541.00
55_L60_A1.7191.00
106_K109_G1.7141.00
163_L167_V1.7101.00
154_V195_Q1.6961.00
99_F147_G1.6761.00
189_E193_L1.6751.00
162_E166_K1.6611.00
49_P53_D1.6381.00
25_N44_A1.6151.00
46_G50_F1.6121.00
50_F53_D1.5861.00
50_F54_A1.5821.00
84_D147_G1.5331.00
21_H31_V1.5261.00
95_L153_V1.5241.00
55_L59_G1.5101.00
13_F18_E1.5061.00
173_A176_D1.4771.00
91_F166_K1.4711.00
49_P52_G1.4701.00
47_R50_F1.4551.00
152_T194_G1.4441.00
22_S28_R1.4431.00
104_R142_G1.4381.00
55_L61_P1.4371.00
64_R156_F1.4101.00
81_G84_D1.4041.00
18_E28_R1.4011.00
13_F32_P1.3981.00
160_L164_D1.3961.00
59_G62_G1.3961.00
21_H29_H1.3911.00
17_L31_V1.3821.00
24_I43_L1.3611.00
152_T191_A1.3531.00
39_L43_L1.3401.00
165_E169_E1.3381.00
69_L181_A1.3331.00
152_T195_Q1.3321.00
115_Q133_D1.3311.00
135_A146_F1.3271.00
98_S150_H1.3161.00
58_R62_G1.3121.00
47_R51_G1.3091.00
17_L39_L1.2961.00
174_L181_A1.2771.00
48_L51_G1.2761.00
36_G42_L1.2601.00
96_T150_H1.2551.00
171_R181_A1.2461.00
126_V130_A1.2371.00
64_R158_E1.2291.00
114_Q118_M1.2281.00
116_R120_S1.2261.00
21_H44_A1.1911.00
103_W106_K1.1781.00
19_F23_L1.1761.00
115_Q119_A1.1741.00
196_L199_N1.1731.00
167_V183_R1.1531.00
93_F97_Q1.1511.00
161_E165_E1.1291.00
48_L52_G1.1251.00
21_H45_T1.1061.00
155_V170_V1.0941.00
184_E187_N1.0931.00
16_L19_F1.0761.00
70_S73_E1.0641.00
58_R61_P1.0531.00
48_L54_A1.0411.00
114_Q117_R1.0411.00
133_D136_L1.0371.00
187_N191_A1.0261.00
15_E18_E1.0251.00
96_T195_Q1.0251.00
11_L32_P1.0251.00
124_D136_L1.0071.00
55_L154_V1.0071.00
70_S74_Y1.0041.00
25_N46_G1.0021.00
194_G204_V0.9921.00
112_D136_L0.9881.00
171_R175_Q0.9861.00
72_K180_V0.9831.00
116_R119_A0.9821.00
57_I62_G0.9740.99
160_L163_L0.9700.99
47_R185_D0.9680.99
107_A113_R0.9680.99
109_G113_R0.9650.99
66_P154_V0.9590.99
104_R113_R0.9580.99
187_N204_V0.9470.99
123_D127_S0.9470.99
80_W83_R0.9370.99
66_P156_F0.9370.99
26_G156_F0.9330.99
194_G203_N0.9250.99
19_F22_S0.9240.99
105_Q108_R0.9130.99
129_A133_D0.9120.99
47_R54_A0.9080.99
46_G54_A0.9030.99
90_P93_F0.9030.99
108_R136_L0.8960.99
24_I196_L0.8850.99
14_S17_L0.8840.99
71_I179_F0.8840.99
39_L44_A0.8790.99
158_E162_E0.8730.99
39_L42_L0.8690.99
13_F16_L0.8630.99
95_L98_S0.8590.99
131_D141_S0.8390.98
187_N203_N0.8380.98
122_D140_G0.8360.98
97_Q100_R0.8250.98
40_D44_A0.8250.98
64_R92_E0.8250.98
27_E175_Q0.8220.98
159_D163_L0.8200.98
105_Q109_G0.8150.98
113_R117_R0.8150.98
25_N45_T0.8100.98
137_D141_S0.8090.98
16_L20_L0.8020.98
134_A138_E0.8010.98
69_L167_V0.7990.98
136_L140_G0.7980.98
48_L53_D0.7920.98
46_G52_G0.7920.98
54_A160_L0.7900.98
56_E63_T0.7880.98
153_V174_L0.7860.98
162_E165_E0.7830.98
164_D168_A0.7830.98
123_D128_Q0.7800.98
12_L16_L0.7780.98
117_R120_S0.7720.97
95_L99_F0.7630.97
97_Q149_H0.7530.97
175_Q181_A0.7490.97
112_D124_D0.7460.97
46_G53_D0.7370.97
31_V180_V0.7360.97
9_N13_F0.7360.97
155_V166_K0.7330.96
108_R140_G0.7320.96
89_L173_A0.7270.96
76_F166_K0.7270.96
70_S184_E0.7250.96
119_A129_A0.7250.96
163_L166_K0.7230.96
129_A132_L0.7230.96
115_Q136_L0.7230.96
115_Q120_S0.7220.96
93_F153_V0.7210.96
13_F30_P0.7190.96
104_R108_R0.7140.96
67_G183_R0.7120.96
34_P42_L0.7120.96
123_D132_L0.7070.96
126_V129_A0.7030.96
74_Y149_H0.7010.95
190_E193_L0.7000.95
62_G158_E0.6920.95
65_F86_L0.6880.95
97_Q101_F0.6880.95
97_Q151_L0.6820.95
156_F166_K0.6820.95
94_V156_F0.6810.95
47_R52_G0.6760.94
12_L15_E0.6740.94
69_L171_R0.6720.94
200_F203_N0.6690.94
95_L151_L0.6680.94
193_L199_N0.6660.94
55_L58_R0.6630.94
184_E191_A0.6620.94
108_R112_D0.6550.94
192_F202_A0.6520.93
91_F170_V0.6490.93
71_I74_Y0.6480.93
18_E31_V0.6480.93
10_G13_F0.6470.93
78_T82_T0.6410.93
78_T83_R0.6410.93
169_E173_A0.6280.92
169_E172_K0.6280.92
174_L185_D0.6270.92
118_M121_A0.6250.92
161_E164_D0.6220.92
115_Q118_M0.6210.92
121_A125_A0.6180.91
66_P92_E0.6130.91
131_D135_A0.6120.91
92_E166_K0.6070.91
138_E146_F0.6060.91
112_D138_E0.6010.90
190_E194_G0.6000.90
72_K182_V0.5980.90
132_L136_L0.5980.90
171_R183_R0.5950.90
85_I173_A0.5940.90
105_Q112_D0.5920.90
56_E62_G0.5870.89
64_R159_D0.5850.89
127_S143_R0.5830.89
124_D128_Q0.5820.89
17_L34_P0.5790.89
125_A141_S0.5790.89
115_Q129_A0.5790.89
99_F123_D0.5780.88
106_K110_L0.5770.88
106_K122_D0.5760.88
123_D130_A0.5760.88
156_F192_F0.5750.88
107_A129_A0.5720.88
103_W124_D0.5720.88
164_D185_D0.5700.88
82_T151_L0.5680.88
37_M99_F0.5680.88
124_D127_S0.5680.88
50_F55_L0.5670.88
55_L68_I0.5660.87
24_I44_A0.5660.87
27_E171_R0.5650.87
47_R168_A0.5620.87
114_Q120_S0.5620.87
139_L145_A0.5620.87
71_I173_A0.5620.87
118_M129_A0.5600.87
97_Q136_L0.5600.87
111_L144_V0.5500.86
85_I116_R0.5500.86
138_E141_S0.5480.86
150_H195_Q0.5450.85
54_A158_E0.5430.85
31_V35_E0.5390.85
95_L192_F0.5390.85
71_I177_L0.5390.85
150_H203_N0.5370.85
68_I191_A0.5360.84
88_D103_W0.5360.84
48_L57_I0.5350.84
51_G56_E0.5340.84
23_L94_V0.5310.84
131_D138_E0.5300.84
75_P145_A0.5290.84
175_Q180_V0.5270.83
46_G57_I0.5230.83
188_A193_L0.5230.83
124_D140_G0.5210.83
33_L36_G0.5210.83
14_S32_P0.5210.83
79_R159_D0.5210.83
87_L148_Y0.5210.83
99_F145_A0.5180.82
125_A128_Q0.5170.82
193_L202_A0.5170.82
102_L144_V0.5170.82
38_Y43_L0.5150.82
105_Q113_R0.5080.81
74_Y98_S0.5060.81
102_L107_A0.5050.81
114_Q136_L0.5030.81
68_I184_E0.5020.80
24_I39_L0.5010.80
71_I134_A0.5000.80
18_E29_H0.5000.80
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

HHsearch Results:
Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov % HHΔ  
4dndA 1 0.4634 11.8 0.939 Contact Map
4j2cA 1 0.5317 11.3 0.94 Contact Map
2jvfA 1 0.4537 9.2 0.942 Contact Map
3ig3A 1 0.3415 7.5 0.944 Contact Map
1vp2A 3 0.4146 4.9 0.949 Contact Map
2z30B 1 0.2341 4.6 0.95 Contact Map
1vqzA 1 0.4195 4.5 0.95 Contact Map
1cg2A 4 0.3902 3.9 0.951 Contact Map
4c3sA 2 0.3805 3.8 0.951 Contact Map
4macA 2 0.3317 3.7 0.952 Contact Map

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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