GREMLIN Database
DUF2040 - Coiled-coil domain-containing protein 55 (DUF2040)
PFAM: PF09745 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 121 (118)
Sequences: 561 (417)
Seq/√Len: 38.4
META: 0.319

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
17_D20_E7.2191.00
56_E59_K3.2351.00
59_K62_Q2.7481.00
105_E109_R2.6401.00
26_K29_K2.5931.00
70_L86_K2.5071.00
108_R112_E2.4681.00
101_K105_E2.1450.99
74_R78_G2.1150.99
104_E108_R2.1110.99
107_K111_E2.0930.99
21_V25_M2.0270.99
90_S94_K2.0220.99
103_E107_K1.9510.98
61_E68_R1.8700.98
108_R111_E1.8610.98
6_E10_E1.8100.98
94_K97_E1.7180.97
53_K56_E1.6470.96
50_N53_K1.5740.94
111_E115_K1.5620.94
64_R103_E1.5570.94
48_I85_E1.4640.92
5_A16_Y1.4480.91
63_E95_K1.4090.90
2_K90_S1.3980.90
15_V21_V1.3920.90
57_R60_R1.3800.89
4_Q16_Y1.3780.89
22_Y25_M1.3370.88
56_E60_R1.3240.87
112_E116_K1.3130.87
97_E101_K1.3010.86
60_R99_R1.3000.86
78_G82_A1.2710.85
8_A16_Y1.2500.84
61_E65_A1.2400.83
109_R112_E1.2400.83
16_Y48_I1.2380.83
100_R103_E1.2330.83
81_F84_K1.2310.83
9_L16_Y1.1990.81
2_K5_A1.1840.80
25_M46_K1.1820.80
96_L99_R1.1820.80
39_D43_R1.1560.79
64_R99_R1.1400.78
102_W105_E1.1360.78
94_K98_E1.1270.77
17_D21_V1.1140.76
14_S17_D1.0850.74
4_Q10_E1.0650.73
109_R113_E1.0620.73
110_E114_E1.0450.71
101_K104_E1.0410.71
68_R72_K1.0360.71
106_E109_R1.0320.70
104_E107_K1.0050.68
2_K6_E1.0010.68
29_K53_K0.9850.67
7_K11_E0.9790.66
5_A9_L0.9400.63
51_L88_V0.9390.63
63_E99_R0.9210.62
97_E100_R0.9130.61
106_E110_E0.9060.60
55_A59_K0.9040.60
16_Y34_A0.9030.60
66_E69_K0.9000.60
3_K7_K0.8980.60
15_V28_K0.8810.58
47_Y58_R0.8710.57
100_R104_E0.8700.57
46_K67_E0.8570.56
9_L15_V0.8560.56
13_P88_V0.8510.55
57_R110_E0.8480.55
95_K99_R0.8450.55
46_K59_K0.8390.54
115_K118_V0.8330.54
64_R102_W0.8250.53
67_E85_E0.8250.53
95_K101_K0.8120.52
74_R77_E0.8120.52
21_V27_A0.7950.50
115_K119_T0.7910.50
3_K6_E0.7860.50
88_V91_A0.7660.48
9_L96_L0.7630.48
34_A112_E0.7620.47
66_E70_L0.7590.47
12_D23_D0.7550.47
110_E113_E0.7550.47
78_G102_W0.7510.47
48_I51_L0.7500.46
58_R87_F0.7470.46
3_K52_L0.7420.46
54_A63_E0.7410.46
15_V23_D0.7390.45
4_Q7_K0.7280.44
111_E114_E0.7270.44
9_L14_S0.7250.44
32_K36_K0.7180.44
63_E96_L0.7160.43
61_E95_K0.7130.43
45_P63_E0.7110.43
64_R94_K0.7070.43
91_A103_E0.7040.42
62_Q66_E0.6920.41
15_V94_K0.6900.41
97_E108_R0.6890.41
61_E116_K0.6880.41
65_A95_K0.6830.41
71_Q78_G0.6830.41
11_E76_A0.6790.40
33_K40_A0.6700.39
99_R102_W0.6700.39
24_S29_K0.6690.39
32_K94_K0.6650.39
86_K113_E0.6600.39
72_K89_T0.6550.38
33_K39_D0.6550.38
70_L113_E0.6510.38
41_K97_E0.6480.38
113_E117_D0.6420.37
63_E66_E0.6420.37
29_K93_K0.6380.37
74_R84_K0.6370.37
54_A57_R0.6370.37
48_I117_D0.6280.36
86_K114_E0.6230.35
54_A64_R0.6160.35
3_K110_E0.6070.34
28_K42_E0.6050.34
7_K15_V0.5960.33
97_E102_W0.5950.33
8_A91_A0.5890.33
64_R86_K0.5880.33
114_E119_T0.5860.32
52_L56_E0.5850.32
75_E78_G0.5840.32
7_K41_K0.5840.32
31_E37_K0.5730.31
77_E81_F0.5720.31
51_L55_A0.5710.31
51_L118_V0.5700.31
12_D18_Y0.5690.31
34_A38_E0.5680.31
12_D75_E0.5680.31
67_E96_L0.5670.31
48_I96_L0.5650.31
16_Y60_R0.5620.31
37_K40_A0.5610.31
21_V24_S0.5590.30
45_P74_R0.5590.30
55_A98_E0.5570.30
67_E73_E0.5500.30
33_K81_F0.5410.29
33_K108_R0.5400.29
25_M108_R0.5400.29
87_F92_Y0.5380.29
50_N62_Q0.5370.29
91_A94_K0.5340.28
50_N54_A0.5340.28
93_K97_E0.5330.28
87_F91_A0.5330.28
8_A22_Y0.5330.28
2_K29_K0.5290.28
9_L12_D0.5270.28
48_I74_R0.5250.28
6_E49_E0.5240.28
79_D82_A0.5240.28
2_K33_K0.5140.27
7_K21_V0.5110.27
5_A85_E0.5030.26
16_Y27_A0.5010.26
43_R89_T0.5000.26
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  
1ytzI 1 0.3306 3.8 0.936 Contact Map
2fh5A 3 0.2727 2.3 0.943 Contact Map
1j1eC 1 0.3306 2.2 0.943 Contact Map
1j1dC 1 0.3306 2.1 0.944 Contact Map
1obbA 2 0.3306 1.9 0.945 Contact Map
2j7nA 2 0.0909 1.7 0.947 Contact Map
1wj2A 1 0.2231 1.3 0.951 Contact Map
3plwA 1 0 0.9 0.954 Contact Map
3beeA 1 0.4298 0.9 0.955 Contact Map
3fvcA 3 0.3306 0.9 0.956 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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