GREMLIN Database
DUF3305 - Protein of unknown function (DUF3305)
PFAM: PF11749 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 141 (139)
Sequences: 4229 (2710)
Seq/√Len: 229.9
META: 0.925

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
37_V40_E3.6861.00
37_V45_T3.6811.00
61_T132_Y3.3451.00
74_S113_A3.2281.00
40_E45_T2.9591.00
75_V96_A2.7841.00
125_E129_A2.5351.00
41_D44_A2.4781.00
39_R46_Q2.4551.00
56_L124_V2.3181.00
9_R19_R2.2531.00
52_F91_P2.1541.00
78_V104_W2.0201.00
80_R110_D2.0071.00
121_R125_E1.9641.00
93_L104_W1.9171.00
126_A130_E1.8711.00
13_S16_A1.8411.00
96_A124_V1.8351.00
103_R106_D1.8181.00
37_V47_F1.8031.00
7_E44_A1.7831.00
2_V54_L1.7601.00
96_A116_M1.7011.00
16_A19_R1.6961.00
62_E99_N1.5261.00
11_A17_D1.4871.00
66_L99_N1.4821.00
63_G99_N1.4791.00
10_K43_D1.4781.00
63_G97_S1.4631.00
11_A16_A1.4631.00
4_V25_V1.4311.00
118_P121_R1.4171.00
107_A110_D1.3941.00
79_L89_A1.3121.00
122_A125_E1.3031.00
48_L51_G1.2951.00
52_F94_V1.2941.00
7_E21_R1.2771.00
116_M124_V1.2691.00
62_E66_L1.2641.00
80_R92_V1.2521.00
29_G33_A1.2491.00
11_A19_R1.2491.00
65_R69_S1.2391.00
133_V136_P1.2281.00
135_E138_K1.2221.00
78_V93_L1.2211.00
9_R21_R1.2211.00
127_F131_H1.2141.00
75_V116_M1.2001.00
7_E46_Q1.1901.00
7_E23_V1.1871.00
5_V38_L1.1661.00
25_V75_V1.1611.00
117_P120_I1.1351.00
8_R45_T1.1291.00
29_G32_D1.1191.00
80_R109_E1.1191.00
22_P112_E1.1051.00
54_L96_A1.1011.00
8_R18_W1.1001.00
67_N98_P1.0791.00
75_V94_V1.0791.00
77_V114_V1.0781.00
26_L48_L1.0781.00
23_V46_Q1.0741.00
25_V114_V1.0731.00
116_M120_I1.0641.00
99_N102_E1.0631.00
83_D87_P1.0611.00
61_T128_V1.0411.00
102_E106_D1.0131.00
10_K13_S0.9881.00
31_P34_A0.9741.00
40_E43_D0.9731.00
70_S74_S0.9671.00
124_V128_V0.9571.00
106_D109_E0.9571.00
122_A129_A0.9371.00
24_A46_Q0.9291.00
3_G48_L0.9281.00
35_W49_A0.9221.00
65_R128_V0.9070.99
28_D31_P0.9050.99
116_M121_R0.9010.99
4_V94_V0.8970.99
122_A126_A0.8880.99
30_A33_A0.8620.99
119_E122_A0.8550.99
13_S17_D0.8530.99
83_D86_E0.8420.99
118_P122_A0.8380.99
12_D19_R0.8300.99
60_E100_E0.8280.99
6_M89_A0.8210.99
5_V26_L0.8130.99
54_L75_V0.8110.99
9_R44_A0.8040.99
60_E97_S0.7970.99
39_R44_A0.7900.99
81_P89_A0.7890.99
5_V46_Q0.7880.99
60_E63_G0.7880.99
11_A18_W0.7860.99
58_R131_H0.7800.98
13_S18_W0.7750.98
10_K14_R0.7700.98
51_G91_P0.7640.98
102_E105_L0.7640.98
137_F140_R0.7630.98
58_R127_F0.7620.98
60_E99_N0.7520.98
2_V94_V0.7500.98
76_F113_A0.7450.98
50_G91_P0.7390.98
59_D97_S0.7330.98
67_N70_S0.7270.98
36_R50_G0.7220.97
57_H99_N0.7140.97
84_D87_P0.7120.97
68_L124_V0.7080.97
138_K141_K0.7060.97
101_A110_D0.7040.97
97_S107_A0.7020.97
10_K18_W0.6990.97
134_P137_F0.6840.97
12_D43_D0.6790.96
66_L70_S0.6710.96
14_R17_D0.6700.96
36_R48_L0.6680.96
75_V120_I0.6660.96
60_E76_F0.6560.96
22_P114_V0.6540.96
6_M49_A0.6510.95
27_P119_E0.6470.95
105_L113_A0.6440.95
54_L94_V0.6410.95
62_E106_D0.6380.95
121_R129_A0.6340.95
119_E123_W0.6290.94
16_A38_L0.6250.94
97_S103_R0.6240.94
119_E128_V0.6220.94
22_P77_V0.6210.94
103_R107_A0.6180.94
65_R134_P0.6160.94
65_R125_E0.6150.94
109_E113_A0.6110.94
6_M79_L0.6090.93
33_A50_G0.6060.93
35_W88_P0.6050.93
128_V132_Y0.6040.93
89_A92_V0.6020.93
99_N103_R0.5990.93
127_F138_K0.5970.93
78_V111_V0.5970.93
61_T127_F0.5940.93
95_T100_E0.5920.93
9_R23_V0.5890.92
124_V127_F0.5880.92
95_T104_W0.5830.92
2_V120_I0.5780.92
24_A27_P0.5730.91
12_D18_W0.5730.91
40_E44_A0.5730.91
27_P30_A0.5700.91
56_L123_W0.5670.91
105_L111_V0.5660.91
61_T99_N0.5650.91
63_G66_L0.5650.91
38_L46_Q0.5630.91
76_F101_A0.5570.90
63_G103_R0.5530.90
132_Y135_E0.5530.90
6_M20_W0.5450.89
68_L121_R0.5430.89
26_L38_L0.5400.89
62_E134_P0.5390.89
61_T65_R0.5390.89
22_P89_A0.5360.88
31_P35_W0.5340.88
35_W87_P0.5330.88
6_M22_P0.5320.88
67_N73_P0.5280.88
66_L105_L0.5260.87
65_R97_S0.5230.87
109_E120_I0.5230.87
6_M10_K0.5220.87
46_Q74_S0.5220.87
79_L91_P0.5190.87
106_D112_E0.5160.86
126_A129_A0.5150.86
81_P87_P0.5150.86
79_L110_D0.5130.86
11_A20_W0.5130.86
70_S73_P0.5120.86
74_S115_P0.5090.86
58_R99_N0.5090.86
22_P99_N0.5090.86
92_V104_W0.5080.86
63_G109_E0.5080.86
26_L115_P0.5050.85
22_P113_A0.5030.85
84_D90_E0.5020.85
35_W47_F0.5010.85
38_L49_A0.5000.85
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  
2kkeA 2 0.3759 5.4 0.952 Contact Map
4qlaA 2 0.9007 4.3 0.954 Contact Map
4me7E 2 0.2411 3.4 0.956 Contact Map
4eo1A 1 0.1986 3.2 0.957 Contact Map
3bidA 2 0.4326 2.8 0.958 Contact Map
3bqoB 1 0.0496 2.7 0.958 Contact Map
2lnuA 1 0.9007 2.6 0.959 Contact Map
4r1zA 2 0.3688 2.4 0.959 Contact Map
2k5jA 2 0.2908 2.4 0.959 Contact Map
2mdvA 2 0.227 2.3 0.96 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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