GREMLIN Database
DUF4235 - Protein of unknown function (DUF4235)
PFAM: PF14019 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 77 (76)
Sequences: 6631 (3865)
Seq/√Len: 443.4
META: 0.899

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
22_Q26_L3.1681.00
22_Q25_K2.9091.00
44_G48_A2.5951.00
18_K22_Q2.1451.00
39_P73_R2.1441.00
28_D45_E2.0281.00
74_R77_G1.9261.00
71_G75_L1.9111.00
48_A51_A1.8221.00
18_K21_K1.8161.00
43_W63_L1.7951.00
50_A62_A1.6791.00
42_S45_E1.6471.00
38_D41_V1.6301.00
67_G70_R1.5961.00
14_L17_R1.5761.00
67_G71_G1.5001.00
8_A11_L1.3991.00
55_A58_A1.3981.00
6_L10_L1.3891.00
70_R73_R1.3291.00
60_V64_V1.3191.00
41_V46_A1.2851.00
17_R21_K1.2501.00
11_L14_L1.2441.00
23_V26_L1.2441.00
12_A64_V1.2121.00
8_A12_A1.2021.00
54_G61_R1.1661.00
16_A60_V1.1461.00
64_V68_A1.1321.00
35_D38_D1.1291.00
56_I60_V1.1261.00
54_G58_A1.1151.00
47_L59_V1.0951.00
46_A62_A1.0571.00
14_L18_K1.0301.00
46_A66_R1.0281.00
63_L67_G1.0261.00
8_A64_V1.0161.00
2_K5_G1.0131.00
7_V11_L1.0021.00
12_A16_A0.9941.00
3_P6_L0.9901.00
51_A55_A0.9841.00
30_E45_E0.9771.00
20_F56_I0.9691.00
16_A56_I0.9571.00
43_W70_R0.9431.00
4_V8_A0.9351.00
66_R70_R0.9291.00
47_L63_L0.9261.00
23_V27_V0.9051.00
47_L50_A0.8891.00
1_Y7_V0.8681.00
20_F49_A0.8591.00
72_F75_L0.8551.00
51_A59_V0.8531.00
41_V45_E0.8531.00
25_K31_E0.8441.00
32_P39_P0.8221.00
25_K29_G0.8111.00
49_A53_Q0.7911.00
69_A72_F0.7901.00
6_L9_G0.7891.00
8_A68_A0.7801.00
46_A50_A0.7601.00
48_A52_L0.7541.00
57_F61_R0.7511.00
10_L14_L0.7391.00
50_A54_G0.7351.00
36_P62_A0.7351.00
6_L14_L0.7311.00
53_Q57_F0.7281.00
61_R65_D0.7191.00
16_A20_F0.7081.00
43_W47_L0.6611.00
1_Y8_A0.6591.00
43_W50_A0.6561.00
2_K37_T0.6521.00
60_V63_L0.6501.00
68_A72_F0.6470.99
1_Y68_A0.6330.99
8_A14_L0.6310.99
9_G56_I0.6210.99
71_G74_R0.6210.99
62_A66_R0.6160.99
19_L23_V0.6160.99
56_I59_V0.6110.99
32_P49_A0.6030.99
14_L22_Q0.6030.99
46_A49_A0.6000.99
49_A56_I0.5870.99
24_W61_R0.5830.99
28_D33_P0.5770.99
26_L29_G0.5770.99
38_D66_R0.5730.99
55_A62_A0.5720.99
3_P7_V0.5650.99
5_G37_T0.5550.98
16_A19_L0.5520.98
5_G9_G0.5510.98
21_K53_Q0.5510.98
9_G24_W0.5490.98
1_Y72_F0.5380.98
10_L13_G0.5330.98
16_A57_F0.5280.98
5_G60_V0.5280.98
2_K59_V0.5250.98
42_S73_R0.5230.98
12_A60_V0.5210.98
4_V7_V0.5190.98
66_R69_A0.5050.97
36_P43_W0.5000.97
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  
1vl8A 4 0.4935 22.2 0.841 Contact Map
4weoA 4 0.4805 18.2 0.847 Contact Map
2x9gA 4 0.4675 16.6 0.85 Contact Map
4nimA 4 0.4805 14.7 0.854 Contact Map
3f9iA 3 0.5195 14.2 0.855 Contact Map
3vtzA 4 0.5065 11.9 0.86 Contact Map
4nbuA 4 0.5325 11.4 0.861 Contact Map
4iqgC 3 0.4286 11 0.862 Contact Map
4ospA 4 0.5195 10.3 0.864 Contact Map
4zjuA 4 0.5195 9.4 0.866 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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