GREMLIN Database
DUF3304 - Protein of unknown function (DUF3304)
PFAM: PF11745 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 134 (126)
Sequences: 1254 (728)
Seq/√Len: 64.8
META: 0.53

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
72_E106_S2.6021.00
18_G29_F2.5801.00
63_W114_Y2.5631.00
69_V111_V2.5281.00
88_G92_L2.5171.00
21_H125_H2.4161.00
107_A131_Q2.4021.00
29_F124_V2.3851.00
91_Y95_E2.3561.00
68_T110_P2.2191.00
105_H130_D2.2121.00
88_G91_Y2.2081.00
19_Y123_T2.1821.00
15_S53_G2.1141.00
38_G41_G2.0531.00
95_E99_K1.8601.00
70_T106_S1.8441.00
88_G95_E1.8211.00
64_R67_L1.8191.00
29_F126_F1.7651.00
89_D92_L1.7581.00
91_Y94_W1.7561.00
90_K93_A1.7491.00
70_T108_V1.7030.99
75_T105_H1.6510.99
92_L95_E1.6250.99
89_D93_A1.5850.99
90_K95_E1.5750.99
88_G94_W1.5530.99
69_V134_V1.5220.99
73_W126_F1.4860.98
83_F88_G1.4420.98
63_W66_G1.4350.98
18_G124_V1.3740.97
2_A10_E1.3670.97
67_L111_V1.3240.97
90_K94_W1.3050.96
44_I51_G1.2760.96
79_P82_D1.2620.96
90_K96_K1.2520.95
37_G41_G1.2520.95
89_D95_E1.2060.94
83_F90_K1.1940.94
2_A8_E1.1720.94
72_E104_Q1.1660.93
19_Y125_H1.1610.93
57_V122_L1.1590.93
93_A97_K1.1560.93
113_P116_G1.1370.93
39_G42_D1.1350.92
12_V59_L1.1250.92
93_A96_K1.1210.92
13_G54_V1.1190.92
66_G110_P1.1060.91
71_V109_V1.0750.90
49_G52_G1.0600.90
92_L96_K1.0590.90
88_G93_A1.0590.90
114_Y121_G1.0450.89
117_Q120_G1.0440.89
89_D96_K1.0360.89
32_N57_V1.0140.87
21_H123_T0.9980.87
60_P63_W0.9950.86
16_I31_V0.9950.86
16_I39_G0.9770.85
75_T78_G0.9710.85
48_G52_G0.9610.84
83_F89_D0.9610.84
12_V61_A0.9610.84
89_D94_W0.9560.84
98_I102_Y0.9550.84
95_E98_I0.9530.84
112_P133_K0.9280.82
27_N74_E0.9260.82
20_N112_P0.9190.82
68_T108_V0.9150.81
5_S8_E0.9090.81
91_Y97_K0.9090.81
94_W98_I0.9070.81
103_R106_S0.9060.81
92_L98_I0.9040.81
84_P88_G0.9040.81
83_F91_Y0.8980.80
65_P114_Y0.8860.79
92_L97_K0.8850.79
63_W67_L0.8840.79
97_K101_Q0.8840.79
127_L131_Q0.8820.79
66_G114_Y0.8800.79
83_F94_W0.8790.79
82_D91_Y0.8750.78
41_G46_P0.8620.77
94_W97_K0.8500.76
17_E123_T0.8480.76
83_F95_E0.8470.76
17_E53_G0.8430.76
38_G43_N0.8320.75
115_T119_G0.8270.74
74_E104_Q0.8120.73
99_K102_Y0.8060.73
84_P91_Y0.7990.72
83_F92_L0.7750.70
80_D83_F0.7730.69
84_P90_K0.7650.69
32_N38_G0.7590.68
60_P67_L0.7560.68
78_G81_A0.7520.67
11_Y16_I0.7490.67
111_V114_Y0.7460.67
91_Y96_K0.7450.66
96_K100_A0.7410.66
3_G7_A0.7370.66
31_V50_G0.7330.65
92_L99_K0.7320.65
119_G123_T0.7300.65
26_I126_F0.7260.64
81_A92_L0.7250.64
80_D84_P0.7200.64
28_R71_V0.7080.63
91_Y99_K0.7030.62
75_T103_R0.6980.61
19_Y23_D0.6910.61
63_W112_P0.6910.61
112_P127_L0.6840.60
97_K100_A0.6790.59
6_Q10_E0.6770.59
21_H69_V0.6750.59
76_D98_I0.6710.58
9_P61_A0.6690.58
32_N69_V0.6650.58
98_I101_Q0.6620.57
45_G48_G0.6600.57
13_G18_G0.6540.56
71_V122_L0.6540.56
41_G47_Y0.6490.56
79_P83_F0.6460.56
81_A98_I0.6460.56
30_S112_P0.6420.55
22_T130_D0.6360.54
89_D99_K0.6270.53
15_S57_V0.6260.53
94_W99_K0.6220.53
18_G44_I0.6180.52
20_N52_G0.6170.52
71_V133_K0.6110.51
9_P65_P0.6050.51
51_G56_C0.6040.51
93_A99_K0.5970.50
29_F55_C0.5900.49
83_F93_A0.5870.49
58_S61_A0.5830.48
77_P80_D0.5820.48
80_D88_G0.5790.48
3_G110_P0.5780.48
21_H128_P0.5750.47
31_V43_N0.5740.47
27_N71_V0.5700.47
26_I48_G0.5690.47
105_H108_V0.5660.46
115_T118_G0.5660.46
38_G57_V0.5570.45
24_W76_D0.5500.44
42_D45_G0.5500.44
51_G55_C0.5420.43
31_V109_V0.5390.43
60_P114_Y0.5360.43
40_G132_V0.5360.43
76_D79_P0.5360.43
93_A101_Q0.5360.43
81_A84_P0.5340.43
3_G6_Q0.5340.43
113_P118_G0.5330.42
81_A89_D0.5310.42
7_A10_E0.5280.42
63_W113_P0.5250.42
88_G99_K0.5250.42
6_Q18_G0.5160.41
2_A7_A0.5140.40
40_G54_V0.5140.40
120_G123_T0.5130.40
42_D46_P0.5130.40
26_I54_V0.5110.40
17_E50_G0.5100.40
22_T25_A0.5080.40
22_T26_I0.5040.39
29_F56_C0.5030.39
26_I73_W0.5010.39
112_P122_L0.5000.39
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  
2ldmA 1 0.3284 6.8 0.934 Contact Map
4g2kA 3 0.5597 5.6 0.936 Contact Map
3p8dA 2 0.3209 5.1 0.937 Contact Map
2hqlA 2 0.3731 4.9 0.938 Contact Map
2do3A 1 0.194 4.5 0.939 Contact Map
3zbiC 1 0.1866 3.9 0.941 Contact Map
3h8zA 1 0.4776 3.6 0.942 Contact Map
4hczA 1 0.3358 3.4 0.943 Contact Map
3s6wA 1 0.3209 3.1 0.944 Contact Map
4qq6A 1 0.3433 2.5 0.946 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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