GREMLIN Database
YCBO - Uncharacterized protein YcbO
UniProt: P42247 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 228 (226)
Sequences: 244 (194)
Seq/√Len: 12.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
23_A63_V4.0421.00
168_F181_S3.5040.99
80_Y173_H3.4210.99
24_N117_S3.1940.98
152_A156_F2.7220.94
24_N93_I2.4740.90
73_V78_S2.3740.88
70_V179_I2.3710.88
98_L183_V2.3630.88
80_Y87_V2.3360.87
12_K117_S2.3340.87
80_Y223_A2.2010.84
77_I181_S2.1970.84
94_S123_A2.1840.83
19_G23_A2.1500.82
116_L204_I2.0380.79
161_T182_S2.0290.79
84_T165_P1.9670.76
88_M162_S1.9080.74
104_M191_S1.9050.74
68_G110_T1.8730.73
170_M227_D1.8340.71
198_I201_V1.8030.70
30_F59_F1.7950.69
121_I124_G1.7820.69
114_I155_A1.7670.68
84_T227_D1.7570.67
115_L119_I1.7560.67
79_E102_K1.7450.67
15_W63_V1.7190.66
100_T113_T1.7080.65
176_P179_I1.7040.65
26_I69_A1.6830.64
84_T170_M1.6690.63
19_G108_G1.6640.63
116_L119_I1.6550.63
168_F209_A1.6360.62
2_N29_G1.6120.61
79_E89_F1.6100.60
114_I191_S1.5900.59
16_Y20_A1.5660.58
12_K19_G1.5560.58
4_I146_Q1.5170.56
22_I26_I1.4770.54
50_D120_L1.4630.53
75_L105_I1.4590.53
13_M116_L1.4570.53
131_I180_I1.4490.52
66_V121_I1.4480.52
62_A187_M1.4480.52
159_A183_V1.4340.51
204_I209_A1.4330.51
3_L111_F1.4200.51
180_I186_V1.4140.50
73_V88_M1.4050.50
22_I131_I1.3870.49
8_L23_A1.3850.49
10_K208_L1.3840.49
62_A74_K1.3780.48
107_G156_F1.3740.48
6_I70_V1.3740.48
11_M184_V1.3700.48
156_F185_I1.3640.48
71_L85_I1.3600.48
5_R104_M1.3590.47
30_F87_V1.3500.47
7_E10_K1.3350.46
70_V73_V1.3320.46
21_L28_M1.3240.46
85_I165_P1.3230.46
49_T139_L1.3110.45
82_N170_M1.2900.44
107_G159_A1.2840.44
66_V129_N1.2640.43
2_N80_Y1.2480.42
58_T161_T1.2150.40
94_S98_L1.2110.40
44_V213_L1.2110.40
84_T167_F1.2100.40
53_F69_A1.2080.40
88_M210_A1.2060.40
49_T137_G1.2060.40
65_I158_A1.2000.39
24_N120_L1.1950.39
219_A227_D1.1910.39
5_R184_V1.1910.39
35_S125_F1.1890.39
78_S88_M1.1860.39
73_V210_A1.1770.38
201_V204_I1.1740.38
45_S94_S1.1730.38
125_F135_I1.1680.38
32_W125_F1.1640.38
75_L80_Y1.1580.37
216_S226_Q1.1460.37
176_P181_S1.1370.36
111_F212_G1.1250.36
20_A220_I1.1230.36
18_R83_K1.1230.36
87_V106_A1.1100.35
29_G152_A1.1020.35
76_V100_T1.1010.35
207_S211_F1.0880.34
172_R178_T1.0670.33
2_N218_M1.0660.33
4_I211_F1.0640.33
162_S168_F1.0630.33
118_N125_F1.0630.33
25_V43_G1.0610.33
105_I119_I1.0600.33
77_I172_R1.0590.33
10_K84_T1.0510.32
169_G174_S1.0450.32
134_F183_V1.0440.32
13_M184_V1.0420.32
76_V85_I1.0410.32
9_R150_K1.0390.32
156_F225_K1.0370.32
58_T125_F1.0270.31
56_I125_F1.0240.31
99_L190_S1.0190.31
32_W133_H1.0050.30
32_W129_N1.0040.30
54_L74_K1.0000.30
80_Y84_T0.9930.30
109_L203_Y0.9850.29
136_P175_V0.9790.29
66_V162_S0.9780.29
96_K160_G0.9750.29
87_V142_E0.9680.29
90_T93_I0.9650.28
77_I85_I0.9620.28
64_F89_F0.9610.28
101_A119_I0.9580.28
126_F146_Q0.9470.28
6_I68_G0.9400.27
110_T179_I0.9400.27
92_P95_R0.9370.27
89_F92_P0.9340.27
71_L165_P0.9270.27
72_I166_I0.9260.27
61_R165_P0.9160.26
8_L20_A0.9100.26
8_L125_F0.9070.26
69_A213_L0.9020.26
8_L158_A0.8990.26
16_Y135_I0.8990.26
71_L163_L0.8980.26
90_T194_P0.8970.26
106_A109_L0.8940.26
162_S178_T0.8940.26
192_T213_L0.8910.25
19_G67_F0.8890.25
106_A128_L0.8880.25
157_G209_A0.8880.25
90_T159_A0.8830.25
42_G185_I0.8820.25
197_S205_P0.8820.25
25_V127_W0.8790.25
59_F188_L0.8780.25
119_I188_L0.8780.25
98_L117_S0.8750.25
26_I83_K0.8740.25
128_L165_P0.8730.25
126_F203_Y0.8710.25
21_L25_V0.8690.25
3_L7_E0.8580.24
45_S200_S0.8450.24
158_A213_L0.8380.23
8_L87_V0.8370.23
21_L221_R0.8350.23
46_F115_L0.8350.23
63_V103_L0.8350.23
133_H207_S0.8350.23
103_L161_T0.8330.23
164_V224_D0.8330.23
86_L90_T0.8300.23
77_I165_P0.8270.23
9_R161_T0.8250.23
199_S203_Y0.8170.23
85_I170_M0.8160.23
13_M213_L0.8150.23
49_T66_V0.8150.23
22_I97_K0.8120.22
5_R48_S0.8110.22
195_G213_L0.7990.22
57_G154_F0.7960.22
155_A160_G0.7950.22
201_V205_P0.7950.22
223_A226_Q0.7910.22
15_W106_A0.7790.21
2_N50_D0.7780.21
73_V124_G0.7760.21
28_M88_M0.7740.21
120_L129_N0.7730.21
136_P211_F0.7710.21
52_A58_T0.7690.21
69_A214_F0.7630.21
11_M99_L0.7630.21
14_G18_R0.7590.21
8_L146_Q0.7560.20
5_R136_P0.7550.20
35_S113_T0.7540.20
52_A78_S0.7530.20
115_L152_A0.7510.20
2_N26_I0.7480.20
116_L196_F0.7470.20
81_K111_F0.7380.20
185_I190_S0.7360.20
48_S108_G0.7320.20
13_M130_S0.7270.20
119_I140_T0.7240.19
6_I198_I0.7230.19
202_V205_P0.7200.19
107_G119_I0.7150.19
75_L180_I0.7130.19
71_L144_I0.7110.19
10_K214_F0.7100.19
171_R191_S0.7080.19
120_L147_Q0.7080.19
93_I97_K0.7040.19
62_A93_I0.7030.19
82_N227_D0.7020.19
29_G33_L0.7010.19
80_Y89_F0.7010.19
72_I165_P0.7000.19
59_F215_F0.6990.19
212_G216_S0.6990.19
197_S213_L0.6980.19
159_A201_V0.6970.19
99_L120_L0.6960.19
75_L173_H0.6920.18
166_I191_S0.6900.18
12_K211_F0.6880.18
191_S195_G0.6830.18
52_A193_S0.6770.18
78_S167_F0.6770.18
41_D161_T0.6760.18
25_V108_G0.6730.18
49_T53_F0.6730.18
217_Y222_N0.6720.18
73_V216_S0.6720.18
55_I139_L0.6640.18
98_L112_I0.6610.17
20_A173_H0.6580.17
86_L159_A0.6550.17
81_K165_P0.6490.17
75_L203_Y0.6470.17
206_L210_A0.6460.17
67_F162_S0.6450.17
86_L125_F0.6440.17
108_G127_W0.6440.17
76_V160_G0.6430.17
27_I63_V0.6430.17
15_W109_L0.6410.17
134_F182_S0.6350.17
71_L87_V0.6350.17
146_Q210_A0.6340.17
21_L162_S0.6290.16
6_I95_R0.6240.16
165_P217_Y0.6240.16
164_V184_V0.6230.16
36_Y100_T0.6210.16
98_L201_V0.6210.16
22_I145_S0.6180.16
202_V219_A0.6170.16
24_N121_I0.6140.16
79_E165_P0.6120.16
49_T135_I0.6100.16
28_M34_I0.6100.16
51_E72_I0.6090.16
194_P200_S0.6070.16
165_P170_M0.6070.16
25_V153_V0.6040.16
65_I84_T0.6010.16
76_V148_A0.5980.16
49_T122_A0.5980.16
23_A93_I0.5980.16
164_V212_G0.5940.16
46_F51_E0.5930.15
41_D44_V0.5900.15
63_V208_L0.5860.15
120_L202_V0.5860.15
73_V175_V0.5850.15
210_A213_L0.5840.15
65_I117_S0.5840.15
66_V76_V0.5830.15
171_R196_F0.5810.15
73_V179_I0.5780.15
149_V222_N0.5770.15
68_G86_L0.5770.15
15_W74_K0.5730.15
67_F168_F0.5730.15
32_W124_G0.5690.15
116_L222_N0.5680.15
48_S59_F0.5680.15
170_M226_Q0.5650.15
104_M142_E0.5600.15
8_L110_T0.5600.15
32_W136_P0.5590.15
62_A190_S0.5590.15
115_L220_I0.5590.15
30_F137_G0.5590.15
2_N6_I0.5530.14
57_G197_S0.5510.14
80_Y92_P0.5500.14
143_I148_A0.5470.14
147_Q185_I0.5460.14
105_I210_A0.5460.14
39_K216_S0.5440.14
98_L167_F0.5430.14
63_V124_G0.5420.14
156_F210_A0.5420.14
69_A136_P0.5400.14
151_M173_H0.5360.14
113_T176_P0.5360.14
26_I124_G0.5340.14
117_S191_S0.5330.14
122_A183_V0.5320.14
101_A193_S0.5310.14
155_A164_V0.5300.14
14_G69_A0.5230.14
109_L113_T0.5200.14
59_F189_I0.5170.14
164_V216_S0.5160.13
23_A209_A0.5140.13
148_A214_F0.5130.13
112_I119_I0.5120.13
47_Q145_S0.5120.13
217_Y224_D0.5100.13
203_Y207_S0.5090.13
74_K184_V0.5090.13
103_L179_I0.5090.13
101_A190_S0.5080.13
12_K208_L0.5080.13
6_I92_P0.5040.13
121_I185_I0.5030.13
68_G131_I0.5020.13
43_G146_Q0.5000.13
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  
3tdsE 3 0.9518 14.4 0.957 Contact Map
2xq2A 2 0.8553 7.3 0.963 Contact Map
1orqC 4 0.4649 6.4 0.964 Contact Map
2cfqA 1 0.7895 6.1 0.964 Contact Map
3dh4A 3 0.864 5.8 0.964 Contact Map
4pypA 1 0.7895 5.8 0.964 Contact Map
4tphA 2 0.7939 4.6 0.966 Contact Map
4ikvA 1 0.8333 4 0.967 Contact Map
4httA 1 0.8553 3.9 0.967 Contact Map
4cadC 1 0.8509 3.6 0.968 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.

Page generated in 0.0082 seconds.