GREMLIN Database
YAFM - Uncharacterized protein YafM
UniProt: Q47152 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13150
Length: 165 (140)
Sequences: 2601 (2085)
Seq/√Len: 176.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
63_I116_I4.0991.00
74_S98_F3.4281.00
117_Y140_D2.9141.00
28_L88_C2.4311.00
103_I112_H2.4151.00
121_V129_V2.4021.00
51_N65_T2.3771.00
52_A113_V2.3751.00
75_S78_R2.3451.00
49_E65_T2.3071.00
59_H119_N2.3021.00
9_I12_G2.2401.00
137_F141_V2.1001.00
18_V60_M2.0881.00
57_P125_W2.0701.00
35_L60_M2.0041.00
48_F76_R1.9591.00
32_Y57_P1.9131.00
78_R82_K1.8341.00
128_Q131_D1.7881.00
115_Y119_N1.7761.00
16_F64_W1.7491.00
82_K86_H1.6771.00
43_K50_I1.5141.00
7_Y102_A1.4621.00
59_H115_Y1.4581.00
42_V80_I1.4411.00
39_I50_I1.4401.00
56_L123_H1.3811.00
17_T99_W1.3761.00
51_N109_Y1.3691.00
103_I109_Y1.3441.00
13_T51_N1.3261.00
90_L95_Q1.3141.00
26_Q30_T1.2931.00
63_I109_Y1.2811.00
38_A83_Q1.2721.00
19_N91_K1.2581.00
61_H119_N1.2501.00
19_N95_Q1.2481.00
34_M38_A1.2461.00
45_D79_E1.2451.00
39_I53_W1.2421.00
63_I113_V1.2361.00
118_I122_K1.2231.00
34_M87_A1.2051.00
101_H108_D1.1981.00
118_I121_V1.1931.00
20_L26_Q1.1751.00
12_G102_A1.1651.00
79_E82_K1.1591.00
22_N89_G1.1531.00
13_T65_T1.1271.00
60_M81_K1.1191.00
90_L96_P1.0901.00
19_N23_R1.0851.00
46_R79_E1.0821.00
53_W139_R1.0811.00
79_E83_Q1.0791.00
20_L27_L1.0781.00
39_I80_I1.0771.00
84_F88_C1.0751.00
35_L55_V1.0531.00
16_F77_W1.0441.00
64_W76_R1.0441.00
20_L84_F1.0360.99
25_S57_P1.0350.99
56_L120_P1.0230.99
16_F73_F1.0160.99
111_H114_D1.0120.99
63_I103_I1.0110.99
18_V81_K1.0070.99
36_R55_V1.0010.99
39_I62_C0.9990.99
58_E115_Y0.9990.99
46_R75_S0.9950.99
32_Y55_V0.9870.99
85_T93_I0.9870.99
6_R97_R0.9850.99
47_P68_E0.9820.99
25_S28_L0.9810.99
41_K83_Q0.9660.99
18_V77_W0.9520.99
132_W135_S0.9510.99
114_D117_Y0.9420.99
127_K131_D0.9350.99
50_I62_C0.9350.99
56_L59_H0.9320.99
54_V135_S0.9280.99
81_K85_T0.9180.99
32_Y134_F0.9120.99
40_I44_R0.9080.99
21_R92_N0.9060.99
15_F112_H0.9050.99
28_L55_V0.8980.99
125_W132_W0.8940.98
57_P132_W0.8920.98
35_L80_I0.8850.98
36_R134_F0.8840.98
92_N96_P0.8830.98
37_H41_K0.8810.98
133_P138_H0.8780.98
101_H112_H0.8760.98
126_V131_D0.8730.98
49_E67_P0.8680.98
19_N58_E0.8650.98
54_V120_P0.8630.98
40_I43_K0.8610.98
94_W117_Y0.8290.98
34_M37_H0.8260.97
113_V117_Y0.8170.97
117_Y135_S0.8140.97
108_D112_H0.8100.97
20_L31_Q0.8090.97
25_S125_W0.8020.97
77_W81_K0.7960.97
61_H115_Y0.7820.96
58_E119_N0.7760.96
107_K111_H0.7710.96
15_F116_I0.7690.96
110_R114_D0.7670.96
43_K48_F0.7630.96
33_Q37_H0.7580.96
47_P67_P0.7550.96
21_R24_R0.7530.96
54_V122_K0.7510.96
26_Q93_I0.7450.95
78_R89_G0.7400.95
126_V132_W0.7390.95
9_I102_A0.7340.95
56_L119_N0.7320.95
43_K76_R0.7250.95
72_D75_S0.7210.94
85_T92_N0.7100.94
75_S79_E0.7100.94
3_E6_R0.7090.94
21_R90_L0.7060.94
118_I129_V0.7060.94
20_L28_L0.7060.94
13_T103_I0.7050.94
58_E123_H0.7040.94
64_W77_W0.7000.94
48_F64_W0.6990.94
31_Q84_F0.6840.93
104_R108_D0.6800.93
6_R100_E0.6800.93
141_V144_G0.6790.93
85_T91_K0.6750.92
38_A42_V0.6680.92
41_K45_D0.6610.92
8_Y14_W0.6530.91
109_Y113_V0.6520.91
39_I136_T0.6470.91
50_I53_W0.6440.90
77_W98_F0.6390.90
139_R143_R0.6380.90
20_L93_I0.6370.90
36_R39_I0.6340.90
129_V137_F0.6290.89
51_N113_V0.6250.89
59_H122_K0.6240.89
138_H142_A0.6240.89
68_E72_D0.6230.89
44_R68_E0.6230.89
31_Q88_C0.6210.89
67_P72_D0.6210.89
42_V79_E0.6200.89
136_T140_D0.6160.88
121_V126_V0.6150.88
113_V140_D0.6130.88
22_N26_Q0.6110.88
138_H144_G0.6020.87
17_T95_Q0.5980.87
92_N95_Q0.5970.87
55_V134_F0.5970.87
38_A41_K0.5920.86
62_C77_W0.5900.86
36_R40_I0.5860.86
26_Q29_T0.5810.85
20_L29_T0.5800.85
71_D75_S0.5780.85
65_T109_Y0.5720.84
83_Q87_A0.5690.84
58_E61_H0.5630.84
81_K84_F0.5570.83
4_Y7_Y0.5460.82
12_G66_L0.5380.81
139_R142_A0.5360.80
100_E104_R0.5360.80
8_Y12_G0.5340.80
26_Q94_W0.5300.80
15_F19_N0.5290.80
101_H104_R0.5280.79
53_W62_C0.5280.79
5_R8_Y0.5270.79
71_D142_A0.5270.79
29_T32_Y0.5260.79
7_Y14_W0.5220.79
41_K44_R0.5210.79
103_I108_D0.5200.78
129_V138_H0.5130.78
124_G131_D0.5110.77
107_K110_R0.5100.77
57_P126_V0.5090.77
8_Y66_L0.5080.77
66_L76_R0.5060.77
56_L132_W0.5050.76
22_N28_L0.5010.76
23_R95_Q0.5010.76
89_G92_N0.5000.76
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  
4er8A 1 1 100 0.22 Contact Map
2vjvA 2 0.6909 100 0.447 Contact Map
2f5gA 2 0.7455 99.9 0.481 Contact Map
2fyxA 2 0.7152 99.9 0.485 Contact Map
3cjlA 2 0.4909 21.4 0.94 Contact Map
2x3gA 2 0.6545 7.8 0.951 Contact Map
2nlyA 1 0.4606 5.1 0.955 Contact Map
1u7kA 3 0.2788 4.9 0.955 Contact Map
2i2jA 1 0.1273 4.5 0.956 Contact Map
2v5dA 1 0.8848 3.9 0.957 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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