GREMLIN Database
YDHI - Uncharacterized protein YdhI
UniProt: O05501 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 160 (152)
Sequences: 178 (154)
Seq/√Len: 12.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
111_I155_F5.6251.00
65_C96_C4.7691.00
104_T129_V4.1421.00
131_K134_R4.0901.00
127_N130_E4.0241.00
88_E157_K3.3600.98
120_Q151_D3.2460.98
88_E119_Y2.7550.94
54_G80_G2.6210.92
57_T71_D2.5520.91
31_S125_F2.2340.84
119_Y157_K2.2260.84
56_I87_V2.1840.82
28_M69_S2.1610.82
40_L68_I2.1470.81
125_F154_L2.1370.81
98_R156_S1.8630.71
18_F22_H1.7310.65
30_I68_I1.6550.61
87_V91_A1.6090.59
37_C69_S1.6050.59
121_F155_F1.6040.59
19_F37_C1.5950.58
7_N12_K1.5670.57
31_S102_I1.5480.56
53_I144_E1.4910.53
84_L92_K1.4280.50
25_T104_T1.4190.49
129_V132_A1.3800.47
112_A143_A1.3590.46
36_R39_E1.3540.46
25_T55_C1.3340.45
67_I119_Y1.3290.45
121_F148_L1.3270.45
23_W106_D1.3200.44
13_H17_D1.3120.44
72_S75_E1.2830.42
121_F153_I1.2770.42
56_I67_I1.2770.42
50_G61_D1.2760.42
43_F56_I1.2240.39
41_D68_I1.2220.39
33_G68_I1.2210.39
111_I121_F1.2040.38
55_C71_D1.1980.38
98_R123_A1.1900.38
31_S129_V1.1870.38
30_I35_F1.1490.36
81_T117_R1.1460.36
19_F157_K1.1450.36
5_I11_A1.1450.36
69_S75_E1.1310.35
87_V99_I1.1120.34
33_G157_K1.1090.34
60_I65_C1.1080.34
108_V145_N1.0710.32
19_F88_E1.0560.32
88_E151_D1.0550.32
96_C101_L1.0530.31
46_V97_Q1.0190.30
92_K99_I1.0180.30
121_F124_V1.0140.30
120_Q150_R1.0130.30
62_G94_A1.0100.30
109_N145_N1.0040.29
7_N42_G0.9970.29
108_V122_A0.9680.28
39_E63_K0.9670.28
45_A98_R0.9610.28
43_F72_S0.9580.27
33_G37_C0.9560.27
143_A149_I0.9410.27
28_M37_C0.9390.27
5_I19_F0.9370.27
43_F84_L0.9350.27
38_D153_I0.9330.26
15_L124_V0.9300.26
57_T69_S0.9270.26
15_L25_T0.9190.26
76_N109_N0.9190.26
102_I125_F0.9170.26
33_G88_E0.9130.26
11_A86_Q0.9090.25
127_N150_R0.9080.25
5_I9_E0.9020.25
75_E145_N0.9020.25
32_S68_I0.9020.25
60_I64_D0.8990.25
91_A96_C0.8930.25
36_R41_D0.8930.25
37_C151_D0.8920.25
64_D100_K0.8860.25
50_G63_K0.8830.24
55_C104_T0.8820.24
9_E62_G0.8790.24
29_A34_I0.8710.24
74_I77_K0.8690.24
25_T129_V0.8620.24
116_K127_N0.8580.24
63_K96_C0.8540.23
67_I127_N0.8540.23
104_T124_V0.8530.23
50_G93_H0.8490.23
26_P36_R0.8460.23
18_F37_C0.8270.22
60_I96_C0.8190.22
121_F126_P0.8150.22
43_F71_D0.8140.22
151_D157_K0.8120.22
31_S68_I0.8110.22
112_A145_N0.8010.22
77_K116_K0.8000.21
62_G97_Q0.8000.21
42_G67_I0.7910.21
27_E72_S0.7860.21
132_A157_K0.7850.21
83_L152_E0.7850.21
63_K81_T0.7760.21
12_K32_S0.7740.21
12_K149_I0.7740.21
17_D49_S0.7740.21
33_G119_Y0.7730.21
56_I79_I0.7690.20
35_F88_E0.7670.20
31_S35_F0.7640.20
87_V96_C0.7630.20
81_T109_N0.7600.20
37_C41_D0.7570.20
48_E72_S0.7530.20
80_G103_T0.7490.20
27_E34_I0.7470.20
116_K135_L0.7420.20
109_N156_S0.7370.19
48_E51_E0.7320.19
53_I68_I0.7150.19
86_Q95_H0.7140.19
37_C73_M0.7130.19
129_V149_I0.7120.19
76_N155_F0.7100.19
22_H127_N0.7050.18
31_S37_C0.7050.18
58_Y89_E0.7010.18
50_G122_A0.6990.18
58_Y90_K0.6980.18
66_E103_T0.6900.18
99_I121_F0.6880.18
92_K124_V0.6870.18
91_A143_A0.6810.18
81_T90_K0.6810.18
22_H73_M0.6730.17
93_H99_I0.6710.17
60_I101_L0.6710.17
126_P156_S0.6700.17
108_V121_F0.6680.17
62_G95_H0.6640.17
31_S151_D0.6620.17
77_K97_Q0.6540.17
75_E109_N0.6540.17
95_H142_V0.6500.17
86_Q143_A0.6480.17
90_K119_Y0.6440.17
45_A80_G0.6400.16
18_F84_L0.6350.16
19_F55_C0.6330.16
62_G89_E0.6290.16
58_Y136_K0.6260.16
42_G138_E0.6260.16
148_L156_S0.6240.16
35_F68_I0.6230.16
59_T109_N0.6220.16
61_D67_I0.6220.16
125_F153_I0.6180.16
65_C87_V0.6150.16
87_V155_F0.6110.16
21_K138_E0.6110.16
42_G72_S0.6100.16
19_F32_S0.6090.16
82_A138_E0.6080.16
68_I100_K0.6040.15
15_L36_R0.6010.15
32_S35_F0.5970.15
120_Q130_E0.5970.15
5_I10_I0.5870.15
94_A108_V0.5860.15
30_I55_C0.5850.15
15_L149_I0.5850.15
22_H71_D0.5800.15
56_I130_E0.5800.15
108_V148_L0.5720.15
69_S119_Y0.5680.15
121_F143_A0.5650.14
145_N157_K0.5640.14
74_I97_Q0.5630.14
69_S141_E0.5600.14
50_G90_K0.5590.14
35_F100_K0.5590.14
80_G101_L0.5550.14
35_F157_K0.5540.14
58_Y132_A0.5520.14
34_I91_A0.5450.14
22_H150_R0.5420.14
38_D61_D0.5400.14
112_A147_I0.5390.14
132_A136_K0.5380.14
34_I73_M0.5330.14
19_F31_S0.5320.14
54_G103_T0.5310.14
89_E142_V0.5310.14
13_H21_K0.5300.14
50_G135_L0.5300.14
7_N124_V0.5290.14
24_G155_F0.5290.14
42_G117_R0.5280.14
112_A144_E0.5280.14
89_E92_K0.5270.14
17_D142_V0.5260.13
61_D68_I0.5230.13
26_P38_D0.5220.13
59_T146_G0.5220.13
32_S37_C0.5140.13
106_D116_K0.5140.13
45_A96_C0.5100.13
51_E130_E0.5100.13
125_F150_R0.5080.13
103_T152_E0.5050.13
112_A117_R0.5040.13
122_A128_A0.5030.13
64_D72_S0.5000.13
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  
1y9kA 1 0.925 99.6 0.767 Contact Map
3dr6A 2 0.9062 99.6 0.772 Contact Map
2cntA 1 0.8938 99.6 0.775 Contact Map
4luaA 1 0.8875 99.6 0.775 Contact Map
2j8mA 2 0.9125 99.6 0.776 Contact Map
1s3zA 2 0.8187 99.6 0.778 Contact Map
3zj0A 1 0.8438 99.6 0.778 Contact Map
3g8wA 2 0.8938 99.5 0.779 Contact Map
1n71A 4 0.875 99.5 0.781 Contact Map
2oh1A 1 0.8625 99.5 0.781 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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