GREMLIN Database
DUF4409 - Domain of unknown function (DUF4409)
PFAM: PF14365 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 118 (117)
Sequences: 979 (724)
Seq/√Len: 66.9
META: 0.225

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
81_D84_R3.9231.00
91_F94_K3.5831.00
11_D76_R3.5111.00
14_P17_K3.2041.00
19_P74_I2.8581.00
98_N101_S2.6881.00
75_R81_D2.6761.00
109_S113_E2.6121.00
13_V74_I2.4521.00
59_L62_K2.1241.00
23_H26_L2.0971.00
84_R91_F1.9491.00
60_W64_G1.8981.00
68_P74_I1.8251.00
22_D83_L1.7851.00
29_H32_Q1.7791.00
109_S117_A1.6840.99
109_S114_H1.6760.99
8_D20_A1.6330.99
100_R105_D1.6140.99
77_T81_D1.5840.99
105_D114_H1.5200.99
36_S39_P1.5180.99
52_S59_L1.4940.99
15_I31_I1.4590.98
26_L29_H1.4260.98
19_P73_P1.3970.98
85_A92_G1.3670.98
18_Q21_F1.3640.98
110_N113_E1.3450.97
111_G114_H1.3240.97
107_V110_N1.3220.97
110_N116_I1.3000.97
21_F24_P1.2560.96
25_L29_H1.2290.95
4_S60_W1.1970.95
18_Q26_L1.1830.94
106_S113_E1.1520.94
100_R103_R1.1490.93
53_S56_I1.1360.93
28_N32_Q1.1250.93
24_P29_H1.1230.93
111_G116_I1.1120.92
51_S54_K1.1100.92
85_A88_L1.1070.92
108_S114_H1.1050.92
106_S114_H1.0930.92
99_P103_R1.0860.91
108_S111_G1.0860.91
6_D10_I1.0680.91
50_K78_T1.0660.91
10_I31_I1.0570.90
103_R113_E1.0360.89
106_S109_S1.0220.89
23_H32_Q1.0070.88
50_K53_S1.0060.88
23_H29_H1.0020.88
7_G68_P0.9960.87
102_V107_V0.9960.87
4_S10_I0.9930.87
13_V26_L0.9890.87
5_P10_I0.9790.86
15_I18_Q0.9600.85
48_N53_S0.9560.85
15_I72_I0.9360.84
100_R104_P0.9300.83
21_F26_L0.9300.83
98_N102_V0.9280.83
78_T86_S0.9250.83
14_P78_T0.9130.82
20_A26_L0.9100.82
10_I60_W0.9040.82
7_G35_P0.8950.81
103_R114_H0.8920.81
48_N52_S0.8910.81
4_S64_G0.8900.81
87_S94_K0.8860.80
58_Q61_H0.8710.79
8_D60_W0.8670.79
23_H28_N0.8480.77
103_R106_S0.8370.76
82_L86_S0.8360.76
58_Q75_R0.8080.74
98_N103_R0.7960.73
103_R108_S0.7950.73
107_V113_E0.7920.72
33_M36_S0.7880.72
53_S62_K0.7840.72
17_K28_N0.7830.72
79_K82_L0.7820.71
35_P39_P0.7810.71
8_D64_G0.7650.70
10_I15_I0.7650.70
75_R84_R0.7640.70
28_N31_I0.7450.68
58_Q64_G0.7440.68
8_D58_Q0.7390.67
12_C18_Q0.7340.67
69_E86_S0.7340.67
17_K80_E0.7280.66
32_Q35_P0.7210.65
15_I32_Q0.7210.65
41_G45_E0.7210.65
101_S117_A0.7170.65
25_L54_K0.7150.65
24_P32_Q0.7140.64
59_L117_A0.7140.64
75_R89_K0.7130.64
98_N105_D0.7110.64
8_D81_D0.7100.64
47_S57_T0.7070.64
14_P70_G0.7070.64
107_V114_H0.7000.63
72_I105_D0.6990.63
105_D110_N0.6970.63
106_S116_I0.6920.62
9_I76_R0.6920.62
18_Q71_T0.6910.62
10_I65_E0.6860.61
105_D111_G0.6800.61
108_S117_A0.6730.60
106_S110_N0.6730.60
102_V106_S0.6720.60
52_S57_T0.6530.58
9_I22_D0.6520.57
49_S52_S0.6450.57
106_S117_A0.6360.56
101_S105_D0.6350.56
100_R106_S0.6350.56
54_K72_I0.6350.56
2_I73_P0.6350.56
56_I62_K0.6290.55
54_K62_K0.6270.55
49_S55_P0.6210.54
26_L32_Q0.6210.54
42_L46_S0.6210.54
107_V116_I0.6170.53
84_R87_S0.6130.53
49_S86_S0.6110.53
10_I24_P0.6080.52
3_Q79_K0.6010.51
7_G23_H0.5980.51
67_C81_D0.5940.51
5_P62_K0.5940.51
22_D27_K0.5920.50
43_F46_S0.5910.50
25_L88_L0.5880.50
5_P30_K0.5840.49
70_G117_A0.5790.49
38_R91_F0.5780.49
105_D108_S0.5770.49
64_G71_T0.5760.49
69_E89_K0.5720.48
34_R37_E0.5700.48
18_Q67_C0.5650.47
9_I17_K0.5610.47
9_I93_R0.5560.46
72_I92_G0.5530.46
87_S91_F0.5520.46
32_Q36_S0.5500.45
80_E94_K0.5440.45
6_D58_Q0.5420.45
20_A29_H0.5390.44
82_L93_R0.5330.43
27_K83_L0.5310.43
44_D63_N0.5280.43
99_P102_V0.5230.42
6_D23_H0.5210.42
17_K22_D0.5200.42
98_N106_S0.5190.42
47_S51_S0.5170.42
110_N114_H0.5150.41
83_L86_S0.5140.41
2_I60_W0.5120.41
97_P103_R0.5070.40
17_K70_G0.5000.40
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  
1akpA 1 0.322 7.3 0.936 Contact Map
4aenA 1 0.2458 5.9 0.938 Contact Map
1acxA 1 0.3051 4.4 0.942 Contact Map
1u58A 1 0.2373 4 0.943 Contact Map
2bc4B 1 0.3136 3.3 0.946 Contact Map
4d6qA 2 0.339 2.6 0.948 Contact Map
4v2wA 1 0.3644 2.5 0.949 Contact Map
1uvqA 1 0.2458 2.5 0.949 Contact Map
1ytqA 4 0.4322 2.2 0.95 Contact Map
2grrB 1 0.3644 2.1 0.951 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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