GREMLIN Database
DUF3390 - Domain of unknown function (DUF3390)
PFAM: PF11870 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 88 (71)
Sequences: 6495 (4101)
Seq/√Len: 486.7
META: 0.863

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
77_E85_E4.5751.00
40_S43_L2.9631.00
77_E82_W2.5411.00
78_S81_E2.4131.00
44_Y48_G2.3811.00
35_A39_S2.3051.00
49_R81_E2.2901.00
79_F83_W2.2301.00
36_W43_L2.1711.00
37_V47_A2.1001.00
41_P45_R2.0421.00
36_W40_S1.9521.00
34_W38_M1.9231.00
45_R80_R1.7651.00
55_R58_L1.7421.00
38_M44_Y1.5511.00
25_R28_R1.5031.00
57_L60_G1.4321.00
55_R60_G1.2711.00
33_A37_V1.2111.00
23_R28_R1.2101.00
34_W44_Y1.1821.00
52_R81_E1.1761.00
49_R53_R1.1271.00
82_W86_R1.1111.00
31_M34_W1.1031.00
33_A36_W1.0571.00
42_R46_L1.0471.00
27_E30_A0.9861.00
41_P44_Y0.9581.00
47_A51_A0.9501.00
60_G63_G0.9271.00
45_R84_R0.9111.00
38_M48_G0.9101.00
50_L54_G0.9091.00
64_A67_R0.8961.00
25_R29_L0.8891.00
28_R32_K0.8811.00
57_L61_P0.8781.00
66_T71_L0.8731.00
83_W86_R0.8551.00
19_Q22_K0.8481.00
21_G24_P0.8421.00
77_E81_E0.8391.00
50_L53_R0.8331.00
55_R59_P0.8261.00
16_V19_Q0.8201.00
58_L63_G0.8131.00
46_L50_L0.8111.00
18_G23_R0.8091.00
29_L33_A0.8021.00
80_R83_W0.7981.00
37_V43_L0.7951.00
27_E31_M0.7821.00
30_A33_A0.7741.00
52_R78_S0.7661.00
32_K35_A0.7541.00
24_P31_M0.7531.00
48_G51_A0.7531.00
34_W75_P0.7471.00
75_P78_S0.7441.00
58_L61_P0.7411.00
56_R59_P0.7161.00
32_K36_W0.7131.00
60_G66_T0.7011.00
22_K25_R0.6951.00
48_G78_S0.6791.00
62_L66_T0.6751.00
29_L32_K0.6681.00
51_A74_P0.6671.00
17_V21_G0.6641.00
81_E84_R0.6621.00
38_M47_A0.6531.00
37_V40_S0.6461.00
17_V20_G0.6301.00
18_G21_G0.6231.00
82_W85_E0.6231.00
55_R73_A0.6221.00
69_R86_R0.6170.99
49_R52_R0.6170.99
81_E86_R0.6090.99
26_A30_A0.6060.99
70_D73_A0.5900.99
26_A29_L0.5860.99
48_G52_R0.5860.99
45_R49_R0.5850.99
55_R61_P0.5840.99
56_R60_G0.5780.99
31_M38_M0.5760.99
72_P75_P0.5680.99
43_L47_A0.5580.99
64_A68_T0.5510.99
63_G66_T0.5460.99
81_E85_E0.5420.99
45_R48_G0.5400.99
36_W46_L0.5400.99
28_R71_L0.5360.99
79_F82_W0.5250.98
71_L75_P0.5150.98
59_P63_G0.5140.98
60_G64_A0.5130.98
61_P64_A0.5120.98
42_R45_R0.5110.98
18_G25_R0.5080.98
19_Q24_P0.5050.98
57_L73_A0.5000.98
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  
1q2fA 1 0.1932 14.5 0.875 Contact Map
2bn8A 1 0.2727 7.4 0.891 Contact Map
4yz6B 1 0.2045 1.9 0.919 Contact Map
1pm6A 1 0.3295 1.4 0.925 Contact Map
2iskA 2 0.2727 1.2 0.928 Contact Map
3pm0A 1 0.1818 1.1 0.929 Contact Map
1r7cA 1 0.3523 0.9 0.933 Contact Map
4l54A 1 0.3409 0.9 0.933 Contact Map
4ascA 1 0.5341 0.9 0.934 Contact Map
1ro2A 1 0.5455 0.8 0.935 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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