GREMLIN Database
YNEF - UPF0154 protein YneF
UniProt: P45708 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 72 (67)
Sequences: 345 (193)
Seq/√Len: 23.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
31_S35_K3.7521.00
53_M59_K3.4071.00
6_G10_G2.8870.99
50_Q66_A2.6530.99
20_L24_I2.6140.99
5_V9_V2.3710.98
57_Q61_N2.2920.97
45_R57_Q2.1870.96
44_L63_M2.1860.96
27_K30_M2.0800.95
6_G9_V1.9340.93
17_G21_G1.9140.93
4_W8_L1.8170.90
45_R61_N1.5070.80
10_G13_A1.2940.68
49_M60_I1.2860.68
44_L60_I1.2750.67
18_V24_I1.2740.67
20_L27_K1.2640.66
15_L19_A1.2440.65
40_N68_N1.2290.64
16_I19_A1.1650.60
49_M54_K1.1140.56
21_G25_A1.1140.56
13_A17_G1.0810.54
9_V13_A1.0630.53
50_Q63_M1.0570.52
56_S67_M1.0410.51
22_F25_A0.9630.46
6_G55_P0.9440.45
29_M63_M0.9410.44
4_W7_I0.9370.44
26_R30_M0.9360.44
33_L40_N0.9040.42
50_Q62_Q0.9000.41
45_R49_M0.8950.41
34_K42_Q0.8920.41
22_F67_M0.8770.40
48_M55_P0.8690.39
29_M32_Y0.8610.39
4_W68_N0.8490.38
41_E61_N0.8370.37
34_K64_M0.8360.37
40_N61_N0.8300.37
57_Q66_A0.8150.36
28_Y54_K0.8120.36
26_R53_M0.8030.35
46_M49_M0.7710.33
14_L21_G0.7610.32
22_F26_R0.7580.32
40_N44_L0.7560.32
65_K68_N0.7500.32
43_M64_M0.7500.32
29_M48_M0.7410.31
38_P64_M0.7300.31
14_L18_V0.7230.30
46_M54_K0.7170.30
8_L13_A0.7040.29
8_L20_L0.6940.28
25_A58_K0.6930.28
38_P41_E0.6870.28
15_L20_L0.6790.28
17_G61_N0.6660.27
32_Y48_M0.6550.26
48_M62_Q0.6530.26
60_I63_M0.6450.26
22_F39_I0.6420.26
59_K62_Q0.6400.25
44_L67_M0.6360.25
46_M62_Q0.6350.25
11_V56_S0.6210.24
24_I27_K0.6190.24
39_I43_M0.6180.24
14_L17_G0.6040.24
5_V8_L0.6030.23
45_R60_I0.6020.23
30_M60_I0.6010.23
25_A29_M0.6000.23
60_I65_K0.5980.23
53_M70_Q0.5970.23
66_A70_Q0.5950.23
11_V23_F0.5950.23
5_V10_G0.5910.23
39_I61_N0.5870.23
22_F43_M0.5810.22
47_M57_Q0.5780.22
30_M33_L0.5750.22
34_K65_K0.5690.22
58_K67_M0.5610.21
43_M66_A0.5580.21
30_M50_Q0.5570.21
65_K69_N0.5550.21
41_E64_M0.5330.20
36_N39_I0.5320.20
8_L40_N0.5260.20
48_M67_M0.5240.20
31_S64_M0.5160.19
61_N65_K0.5130.19
46_M66_A0.5040.19
32_Y68_N0.5000.19
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  
3zg1A 2 0.4444 53.1 0.889 Contact Map
3layA 5 0.6389 53 0.889 Contact Map
2m8rA 1 0.3472 36.4 0.9 Contact Map
2f95B 2 0.2917 33.3 0.901 Contact Map
1scfA 4 0 30.8 0.903 Contact Map
4n5xA 1 0.6528 26.9 0.906 Contact Map
2lk9A 1 0.3333 26.4 0.906 Contact Map
4gycB 2 0.3472 26.2 0.906 Contact Map
3qnqA 2 0.6111 22.9 0.909 Contact Map
1bu3A 2 0.3194 20.2 0.912 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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