GREMLIN Database
DUF3140 - Protein of unknown function (DUF3140)
PFAM: PF11338 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 92 (91)
Sequences: 2263 (1357)
Seq/√Len: 142.3
META: 0.766

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
5_A69_V3.7441.00
14_E48_R3.7391.00
88_R92_M3.5891.00
39_S61_H3.0801.00
27_Q35_V3.0741.00
66_V70_H2.7161.00
2_F59_Y2.4391.00
80_G85_S2.1561.00
37_H40_G2.0291.00
10_A47_L2.0061.00
5_A70_H1.9561.00
77_R80_G1.9351.00
50_K53_D1.8491.00
11_A15_D1.8281.00
77_R82_V1.7661.00
49_K53_D1.7051.00
61_H64_K1.6861.00
80_G83_E1.6531.00
84_D89_Y1.6491.00
54_L59_Y1.5811.00
42_R61_H1.5741.00
49_K58_D1.3751.00
42_R45_E1.3621.00
29_G32_G1.3481.00
49_K54_L1.3251.00
39_S43_I1.3091.00
14_E18_E1.2971.00
10_A48_R1.2711.00
44_V48_R1.2121.00
80_G84_D1.1861.00
69_V73_L1.1731.00
70_H73_L1.1530.99
63_R66_V1.1490.99
14_E44_V1.1230.99
81_D84_D1.1220.99
38_A42_R1.1210.99
77_R85_S1.1070.99
28_K31_G1.0970.99
25_V34_S1.0900.99
9_T12_E1.0900.99
68_Y72_H1.0520.99
72_H75_Q1.0450.99
12_E15_D1.0450.99
25_V89_Y1.0260.99
77_R83_E1.0200.99
82_V85_S1.0190.99
25_V28_K1.0190.99
1_E4_E0.9740.98
33_E41_R0.9680.98
33_E37_H0.9260.98
78_P81_D0.9250.98
49_K55_T0.9250.98
72_H90_S0.8720.96
73_L77_R0.8540.96
57_D60_A0.8370.96
5_A8_M0.8260.95
52_A59_Y0.8190.95
77_R84_D0.7970.94
61_H65_V0.7720.93
29_G38_A0.7710.93
18_E45_E0.7690.93
13_L40_G0.7440.92
85_S88_R0.7390.92
23_R50_K0.7300.91
60_A63_R0.7290.91
5_A66_V0.7270.91
21_E24_S0.7260.91
59_Y63_R0.7220.91
85_S89_Y0.7220.91
43_I65_V0.7220.91
60_A64_K0.7200.90
28_K32_G0.7110.90
78_P87_W0.7020.89
15_D18_E0.6960.89
2_F7_N0.6930.89
39_S90_S0.6910.89
28_K38_A0.6910.89
13_L46_I0.6870.88
70_H74_A0.6840.88
11_A51_K0.6790.88
47_L58_D0.6770.88
13_L73_L0.6750.87
31_G38_A0.6670.87
27_Q31_G0.6610.86
89_Y92_M0.6590.86
68_Y71_R0.6580.86
45_E56_D0.6490.85
3_H47_L0.6490.85
79_A83_E0.6450.85
22_S25_V0.6440.85
65_V68_Y0.6410.85
17_L62_M0.6410.85
29_G50_K0.6290.84
67_G72_H0.6260.83
81_D85_S0.6260.83
20_D23_R0.6250.83
46_I54_L0.6240.83
68_Y75_Q0.6170.82
39_S71_R0.6130.82
37_H41_R0.6120.82
25_V86_R0.6080.81
35_V38_A0.6050.81
42_R57_D0.5980.80
34_S86_R0.5950.80
54_L62_M0.5940.80
82_V88_R0.5860.79
8_M79_A0.5830.79
4_E20_D0.5740.78
52_A60_A0.5730.77
4_E70_H0.5660.77
2_F63_R0.5630.76
11_A48_R0.5630.76
34_S37_H0.5610.76
56_D60_A0.5600.76
39_S65_V0.5580.76
17_L40_G0.5560.75
31_G34_S0.5540.75
30_G56_D0.5510.75
35_V64_K0.5470.74
3_H51_K0.5460.74
65_V69_V0.5440.74
9_T57_D0.5440.74
47_L51_K0.5410.73
71_R90_S0.5390.73
67_G70_H0.5380.73
3_H52_A0.5200.70
4_E42_R0.5190.70
75_Q90_S0.5140.70
11_A73_L0.5070.69
47_L79_A0.5050.68
71_R74_A0.5040.68
54_L58_D0.5030.68
17_L43_I0.5030.68
8_M15_D0.5020.68
1_E70_H0.5000.67
8_M92_M0.5000.67
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  
1lmb3 2 0.6304 11.6 0.916 Contact Map
1jeyA 1 0 10.6 0.918 Contact Map
2ys9A 1 0.3587 10.3 0.918 Contact Map
3zilB 1 0.1196 8.7 0.921 Contact Map
4rcmA 1 0.6087 7.9 0.922 Contact Map
1wurA 6 0.3913 7.4 0.924 Contact Map
4bpeO 1 0.9457 6.9 0.924 Contact Map
3op9A 4 0.7826 6.6 0.925 Contact Map
3j20Q 1 0.9348 6.6 0.925 Contact Map
2vugA 2 0.2065 6.6 0.925 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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