GREMLIN Database
EFTUD2 - 116 kDa U5 small nuclear ribonucleoprotein component N-terminus
PFAM: PF16004 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 121 (118)
Sequences: 653 (533)
Seq/√Len: 49.1
META: 0.329

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
75_K82_E5.2631.00
93_Q97_A3.6251.00
102_E106_A2.9401.00
85_G88_V2.6071.00
103_P107_P2.5971.00
78_P83_V2.5871.00
10_Y13_P2.3891.00
53_M56_D2.3601.00
58_E61_D2.2201.00
79_S100_L2.0711.00
72_E77_Y2.0301.00
89_E93_Q1.9830.99
70_L74_K1.8700.99
3_L13_P1.8580.99
117_E121_P1.8510.99
55_E58_E1.8270.99
70_L73_D1.8260.99
18_D21_E1.7970.99
79_S88_V1.6530.98
79_S85_G1.6310.98
30_D33_D1.5520.97
10_Y15_L1.5450.97
94_E98_Q1.5440.97
13_P82_E1.5180.97
56_D59_D1.4650.96
74_K77_Y1.4290.95
88_V112_K1.4210.95
71_H76_Y1.3980.95
10_Y109_K1.3820.94
51_E54_D1.3750.94
101_T104_I1.3670.94
89_E99_P1.3230.93
4_Y12_G1.2830.92
113_F120_L1.2770.91
91_L105_I1.2680.91
88_V106_A1.2460.90
23_E26_D1.2090.89
68_V72_E1.2050.89
55_E60_D1.2030.89
81_E86_P1.1940.88
2_D17_S1.1830.88
27_E32_D1.1720.87
25_E28_E1.1650.87
76_Y98_Q1.1620.87
73_D76_Y1.1260.85
28_E32_D1.1190.85
5_D8_G1.1160.85
70_L77_Y1.1140.85
24_E27_E1.1120.85
75_K104_I1.1080.84
34_D38_E1.0980.84
97_A115_V1.0590.82
47_D52_L1.0510.81
76_Y89_E1.0250.79
27_E31_D1.0230.79
21_E24_E1.0160.79
66_N88_V1.0140.79
87_D118_K0.9840.77
25_E37_E0.9750.76
86_P91_L0.9710.76
29_A36_E0.9670.75
89_E92_V0.9530.74
67_A97_A0.9470.74
71_H88_V0.9470.74
84_Y105_I0.9420.73
37_E40_D0.9290.72
70_L80_A0.9130.71
91_L116_E0.9100.71
48_E51_E0.9080.71
89_E98_Q0.8930.69
94_E101_T0.8920.69
5_D9_N0.8880.69
93_Q99_P0.8860.69
33_D37_E0.8800.68
44_E47_D0.8760.68
41_E47_D0.8700.67
71_H93_Q0.8600.66
77_Y96_D0.8440.65
27_E30_D0.8410.65
101_T116_E0.8380.64
93_Q101_T0.8330.64
29_A32_D0.8290.63
21_E26_D0.8250.63
25_E29_A0.8170.62
89_E94_E0.8050.61
73_D77_Y0.7970.60
101_T114_T0.7940.60
65_S113_F0.7920.60
4_Y7_F0.7870.59
13_P109_K0.7830.59
105_I119_D0.7820.59
104_I117_E0.7810.59
4_Y10_Y0.7770.58
63_P111_K0.7760.58
6_E9_N0.7650.57
57_E61_D0.7600.57
74_K96_D0.7560.56
17_S90_T0.7550.56
35_E39_E0.7520.56
13_P69_V0.7500.56
53_M57_E0.7470.55
72_E76_Y0.7420.55
82_E86_P0.7400.55
70_L96_D0.7360.54
54_D64_P0.7280.54
79_S102_E0.7250.53
38_E45_G0.7150.52
32_D36_E0.7130.52
32_D35_E0.7040.51
77_Y94_E0.7030.51
78_P92_V0.6970.50
4_Y8_G0.6960.50
59_D64_P0.6910.50
74_K80_A0.6900.50
28_E31_D0.6880.49
68_V73_D0.6830.49
16_D19_E0.6800.49
75_K114_T0.6800.49
49_D52_L0.6800.49
116_E119_D0.6740.48
79_S90_T0.6720.48
9_N12_G0.6670.47
16_D88_V0.6660.47
58_E62_E0.6620.47
51_E57_E0.6600.47
24_E108_V0.6540.46
26_D29_A0.6520.46
13_P116_E0.6500.46
85_G92_V0.6500.46
57_E60_D0.6420.45
52_L56_D0.6400.45
26_D30_D0.6400.45
37_E44_E0.6380.44
75_K106_A0.6370.44
71_H114_T0.6360.44
31_D39_E0.6350.44
36_E40_D0.6340.44
75_K81_E0.6320.44
22_D50_E0.6280.43
70_L76_Y0.6270.43
50_E54_D0.6250.43
115_V119_D0.6220.43
52_L55_E0.6140.42
75_K79_S0.6130.42
70_L85_G0.6030.41
69_V119_D0.6020.41
44_E48_E0.5850.39
23_E27_E0.5840.39
36_E58_E0.5800.39
67_A78_P0.5790.39
22_D25_E0.5750.38
112_K119_D0.5640.37
45_G48_E0.5630.37
53_M59_D0.5610.37
69_V76_Y0.5610.37
23_E39_E0.5590.37
80_A94_E0.5580.37
33_D36_E0.5550.36
8_G12_G0.5500.36
110_V119_D0.5490.36
90_T97_A0.5470.36
60_D63_P0.5410.35
10_Y119_D0.5390.35
65_S89_E0.5350.34
104_I116_E0.5340.34
102_E116_E0.5330.34
36_E56_D0.5280.34
92_V95_E0.5280.34
71_H94_E0.5260.34
87_D94_E0.5190.33
74_K85_G0.5160.33
75_K78_P0.5110.32
46_E105_I0.5080.32
84_Y95_E0.5080.32
76_Y94_E0.5060.32
68_V84_Y0.5010.31
77_Y80_A0.5000.31
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  
4h31A 3 0.3636 4.3 0.945 Contact Map
4u7aA 1 0 4 0.946 Contact Map
2mn2A 1 0.3471 2.8 0.95 Contact Map
2p9rA 1 0.4463 2.2 0.953 Contact Map
4y66B 1 0.3306 1.9 0.955 Contact Map
4fp9B 2 0.1488 1.8 0.955 Contact Map
4ipeA 2 0.8512 1.6 0.956 Contact Map
2yzyA 1 0.3388 1.6 0.956 Contact Map
1f1sA 1 0.5124 1.4 0.957 Contact Map
2ca6A 1 0.157 1.3 0.959 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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