GREMLIN Database
DUF308 - Short repeat of unknown function (DUF308)
PFAM: PF03729 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 73 (72)
Sequences: 56161 (38200)
Seq/√Len: 4501.9
META: 0.913

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
6_A31_W2.8961.00
30_A34_V2.4751.00
33_L68_G2.3711.00
11_I15_A2.1701.00
26_L30_A2.1491.00
12_L16_W2.1191.00
35_S39_E2.0931.00
36_G65_I1.9831.00
13_A20_T1.9261.00
43_A58_L1.8671.00
40_I61_G1.7991.00
49_E52_G1.7131.00
28_L32_L1.6281.00
41_V45_R1.5071.00
22_L26_L1.4011.00
31_W35_S1.3911.00
43_A61_G1.3771.00
39_E60_S1.3731.00
16_W19_I1.3581.00
62_I66_L1.3371.00
37_I41_V1.3311.00
64_S67_L1.3141.00
32_L67_L1.3031.00
55_W59_L1.2891.00
60_S64_S1.2811.00
50_G53_G1.2281.00
2_L35_S1.2241.00
23_A27_L1.2051.00
47_R54_R1.1961.00
36_G61_G1.1401.00
4_I8_V1.1301.00
58_L62_I1.1151.00
39_E57_L1.1101.00
6_A9_A1.0981.00
18_G22_L1.0731.00
23_A26_L1.0451.00
51_G54_R1.0121.00
39_E61_G1.0061.00
8_V12_L1.0041.00
40_I44_F1.0031.00
18_G21_L0.9971.00
54_R58_L0.9821.00
42_A57_L0.9711.00
33_L65_I0.9581.00
57_L60_S0.9541.00
21_L25_V0.9371.00
52_G55_W0.9371.00
39_E64_S0.9181.00
41_V44_F0.8941.00
40_I65_I0.8891.00
29_G68_G0.8881.00
42_A45_R0.8741.00
66_L70_L0.8701.00
36_G64_S0.8541.00
66_L69_V0.8371.00
19_I23_A0.8361.00
30_A72_L0.8281.00
2_L60_S0.8221.00
9_A27_L0.7851.00
29_G71_L0.7741.00
46_L49_E0.7731.00
53_G56_W0.7701.00
40_I58_L0.7691.00
9_A31_W0.7661.00
3_G7_I0.7601.00
2_L39_E0.7571.00
47_R50_G0.7531.00
6_A13_A0.7521.00
2_L9_A0.7481.00
22_L25_V0.7231.00
8_V11_I0.7091.00
56_W60_S0.6911.00
45_R48_G0.6701.00
42_A46_L0.6671.00
7_I11_I0.6661.00
16_W20_T0.6661.00
2_L6_A0.6551.00
67_L70_L0.6531.00
19_I22_L0.6461.00
69_V72_L0.6351.00
43_A54_R0.6341.00
60_S67_L0.6321.00
38_F42_A0.6221.00
17_P24_L0.6221.00
50_G54_R0.6121.00
48_G52_G0.6051.00
30_A38_F0.6051.00
25_V71_L0.6011.00
58_L61_G0.6011.00
43_A55_W0.6011.00
28_L67_L0.5941.00
59_L63_L0.5761.00
44_F58_L0.5681.00
51_G55_W0.5651.00
5_L9_A0.5591.00
9_A28_L0.5571.00
43_A57_L0.5531.00
15_A18_G0.5491.00
57_L64_S0.5461.00
39_E42_A0.5441.00
1_L4_I0.5441.00
36_G68_G0.5371.00
35_S64_S0.5351.00
65_I69_V0.5271.00
25_V32_L0.5191.00
23_A31_W0.5111.00
60_S63_L0.5101.00
6_A35_S0.5001.00
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  
4o6mA 2 0.9589 7.6 0.774 Contact Map
4o6yA 2 1 5.6 0.787 Contact Map
3owqA 1 0 3.3 0.809 Contact Map
3pjzA 2 0.9041 3.2 0.81 Contact Map
4ytpD 1 0.9863 2.8 0.817 Contact Map
4k0jA 3 0.9726 2.7 0.818 Contact Map
4mt1A 3 1 2.6 0.82 Contact Map
4dx5A 3 1 2.5 0.822 Contact Map
4c7rA 3 1 2.5 0.822 Contact Map
4djkA 2 0.9726 2.4 0.822 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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