GREMLIN Database
CAIE - Carnitine operon protein CaiE
UniProt: P39206 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12608
Length: 196 (153)
Sequences: 5804 (3349)
Seq/√Len: 270.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
34_G55_G3.7041.00
55_G77_N3.6431.00
64_M72_T2.9421.00
54_A76_E2.6961.00
94_D112_E2.6731.00
33_A54_A2.6731.00
127_G133_L2.5731.00
92_G111_E2.4551.00
75_G93_R2.3921.00
14_H33_A2.3541.00
116_A134_M2.3101.00
108_V126_R2.3021.00
70_T106_G2.3001.00
77_N94_D2.2581.00
30_I51_I2.1871.00
93_R111_E2.0301.00
32_G54_A1.9951.00
112_E130_R1.9581.00
111_E129_K1.8661.00
39_P166_C1.7721.00
76_E93_R1.7431.00
145_S148_E1.6981.00
130_R149_L1.6701.00
74_V78_G1.6321.00
35_V76_E1.6301.00
122_K125_F1.5741.00
28_D49_R1.5351.00
92_G108_V1.5221.00
103_I107_A1.5071.00
16_T34_G1.5031.00
20_H39_P1.4991.00
22_S40_L1.4831.00
110_G129_K1.4811.00
30_I49_R1.4771.00
63_I83_G1.4741.00
110_G126_R1.4701.00
40_L61_G1.4691.00
90_L108_V1.4611.00
37_I43_L1.4611.00
86_L89_C1.4611.00
51_I73_I1.4331.00
113_S131_Q1.4221.00
131_Q143_N1.3961.00
55_G160_Q1.3951.00
128_E131_Q1.3701.00
128_E140_A1.3661.00
61_G83_G1.3651.00
73_I90_L1.3001.00
31_V37_I1.2991.00
119_S138_A1.2871.00
131_Q140_A1.2841.00
13_V17_A1.2811.00
83_G100_N1.2701.00
113_S129_K1.2421.00
115_V121_V1.2411.00
35_V56_A1.2381.00
85_I100_N1.2031.00
133_L140_A1.1581.00
112_E149_L1.1571.00
134_M141_V1.1411.00
56_A78_G1.1391.00
102_V118_M1.1341.00
95_A129_K1.1281.00
29_V43_L1.1251.00
16_T33_A1.1181.00
115_V127_G1.1171.00
58_I64_M1.1061.00
91_I95_A1.1001.00
48_G69_D1.0971.00
133_L138_A1.0761.00
48_G71_D1.0711.00
41_A62_C1.0531.00
31_V35_V1.0521.00
19_V23_A1.0501.00
53_Q76_E1.0461.00
25_L29_V1.0431.00
110_G128_E1.0261.00
32_G51_I1.0231.00
14_H17_A1.0071.00
22_S39_P1.0051.00
58_I80_I0.9901.00
32_G76_E0.9771.00
142_R148_E0.9751.00
72_T86_L0.9621.00
15_P33_A0.9481.00
85_I99_M0.9451.00
128_E133_L0.9441.00
95_A113_S0.9381.00
79_H155_N0.9271.00
140_A143_N0.9191.00
150_H153_R0.9171.00
75_G90_L0.9141.00
25_L31_V0.9131.00
58_I62_C0.9111.00
24_V40_L0.9101.00
120_F136_T0.9021.00
135_G138_A0.8861.00
112_E152_K0.8481.00
62_C84_A0.8481.00
160_Q164_G0.8431.00
43_L52_V0.8411.00
130_R143_N0.8411.00
75_G92_G0.8391.00
162_L165_R0.8361.00
115_V133_L0.8340.99
132_L144_V0.8310.99
157_K161_D0.8210.99
146_D150_H0.8180.99
112_E153_R0.8100.99
121_V138_A0.8050.99
154_L158_E0.8020.99
48_G70_T0.7970.99
102_V120_F0.7960.99
35_V54_A0.7870.99
122_K138_A0.7840.99
49_R73_I0.7820.99
158_E161_D0.7760.99
120_F134_M0.7610.99
119_S136_T0.7530.99
88_G105_D0.7470.99
164_G168_V0.7470.99
154_L157_K0.7410.99
161_D164_G0.7380.99
109_I113_S0.7380.99
60_D82_H0.7250.99
101_S115_V0.7230.99
148_E151_W0.7210.99
85_I102_V0.7200.99
34_G164_G0.7190.98
74_V80_I0.7180.98
43_L50_L0.7180.98
95_A111_E0.7180.98
14_H32_G0.7140.98
49_R71_D0.7120.98
47_Y66_G0.7110.98
97_V115_V0.7100.98
94_D152_K0.7100.98
97_V103_I0.7030.98
120_F137_P0.6990.98
56_A76_E0.6990.98
94_D111_E0.6990.98
150_H154_L0.6950.98
56_A74_V0.6930.98
77_N153_R0.6930.98
91_I97_V0.6930.98
160_Q163_V0.6930.98
107_A121_V0.6920.98
52_V56_A0.6910.98
92_G113_S0.6910.98
155_N158_E0.6900.98
13_V25_L0.6900.98
130_R146_D0.6850.98
13_V31_V0.6840.98
122_K136_T0.6810.98
17_A35_V0.6770.98
59_Q81_G0.6760.98
156_T159_Y0.6740.98
146_D149_L0.6730.98
70_T88_G0.6720.98
56_A93_R0.6690.98
113_S127_G0.6640.97
92_G95_A0.6630.97
94_D153_R0.6560.97
102_V117_A0.6520.97
66_G70_T0.6430.97
34_G54_A0.6410.97
55_G76_E0.6370.97
84_A101_S0.6330.97
80_I86_L0.6290.97
152_K155_N0.6240.96
144_V149_L0.6210.96
157_K160_Q0.6180.96
65_H87_H0.6160.96
101_S119_S0.6130.96
18_F39_P0.6130.96
81_G98_G0.6130.96
96_L114_I0.6070.96
24_V42_S0.6070.96
165_R169_S0.6070.96
158_E162_L0.6030.96
14_H31_V0.6010.96
127_G140_A0.6010.96
113_S133_L0.5980.95
122_K134_M0.5960.95
37_I41_A0.5940.95
74_V86_L0.5930.95
61_G85_I0.5910.95
81_G96_L0.5910.95
59_Q82_H0.5900.95
17_A31_V0.5850.95
34_G160_Q0.5850.95
29_V45_G0.5850.95
92_G129_K0.5850.95
43_L64_M0.5820.95
78_G111_E0.5800.95
128_E143_N0.5750.94
42_S61_G0.5740.94
162_L166_C0.5740.94
122_K137_P0.5700.94
86_L91_I0.5670.94
13_V16_T0.5670.94
78_G91_I0.5640.94
145_S149_L0.5620.94
16_T167_H0.5620.94
92_G110_G0.5570.93
89_C107_A0.5540.93
121_V133_L0.5500.93
32_G35_V0.5480.93
163_V167_H0.5440.93
156_T160_Q0.5440.93
137_P140_A0.5430.92
47_Y158_E0.5430.92
48_G66_G0.5390.92
17_A163_V0.5350.92
161_D165_R0.5300.92
66_G72_T0.5280.91
40_L83_G0.5270.91
47_Y105_D0.5240.91
98_G101_S0.5230.91
53_Q93_R0.5230.91
57_N79_H0.5180.91
153_R157_K0.5130.90
147_D150_H0.5130.90
149_L153_R0.5110.90
97_V101_S0.5110.90
21_P24_V0.5060.90
127_G131_Q0.5050.89
13_V19_V0.5040.89
118_M136_T0.5040.89
42_S60_D0.5000.89
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  
1v3wA 3 0.8827 100 0.367 Contact Map
3r3rA 3 0.8724 100 0.376 Contact Map
1xhdA 3 0.8673 100 0.379 Contact Map
3ixcA 3 0.8316 100 0.387 Contact Map
4n27A 3 0.8776 100 0.388 Contact Map
1j2zA 3 0.9745 100 0.388 Contact Map
3r1wA 3 0.8827 100 0.391 Contact Map
3hsqA 3 0.9847 100 0.393 Contact Map
4r36A 3 0.9847 100 0.398 Contact Map
3r0sA 3 0.9439 100 0.401 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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