GREMLIN Database
DUF3945 - Protein of unknown function (DUF3945)
PFAM: PF13101 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 59 (57)
Sequences: 1243 (705)
Seq/√Len: 93.4
META: 0.87

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
29_E34_K3.5481.00
42_D47_K3.3551.00
28_D40_K3.2841.00
41_Q45_E3.0991.00
42_D49_V2.7211.00
38_E42_D2.3711.00
9_I16_L2.2171.00
26_I43_L2.2111.00
55_T58_K1.7401.00
11_K14_N1.7201.00
28_D34_K1.7161.00
51_L54_M1.5651.00
15_E18_A1.5491.00
6_F21_A1.4240.99
9_I14_N1.3920.99
5_S18_A1.3910.99
6_F19_L1.2830.99
41_Q44_R1.2680.99
37_E40_K1.2290.98
36_T39_Q1.1470.98
20_R23_K1.1190.97
27_P30_I1.0730.96
8_S12_L1.0550.96
29_E32_G1.0070.95
35_L39_Q1.0050.95
20_R50_Y0.9900.94
38_E41_Q0.9720.94
37_E41_Q0.9460.93
36_T47_K0.9420.93
33_V39_Q0.9040.91
8_S15_E0.8980.91
8_S32_G0.8950.90
16_L43_L0.8930.90
9_I21_A0.8660.89
33_V53_G0.8440.88
10_D35_L0.8110.86
52_E56_S0.8010.85
30_I51_L0.7560.81
10_D15_E0.7490.81
15_E20_R0.7490.81
23_K26_I0.7290.79
4_P7_V0.7070.77
31_K43_L0.7060.77
30_I35_L0.6970.76
43_L49_V0.6860.75
44_R48_P0.6850.75
7_V44_R0.6830.74
4_P10_D0.6820.74
4_P11_K0.6800.74
53_G57_K0.6780.74
25_K39_Q0.6780.74
13_T31_K0.6760.74
2_K58_K0.6710.73
50_Y53_G0.6600.72
30_I58_K0.6460.70
25_K40_K0.6270.68
4_P8_S0.6160.67
35_L54_M0.6110.66
52_E58_K0.6080.66
33_V54_M0.5900.63
25_K44_R0.5870.63
24_I30_I0.5830.62
13_T30_I0.5790.62
10_D24_I0.5700.61
33_V49_V0.5690.60
53_G56_S0.5680.60
36_T41_Q0.5670.60
25_K28_D0.5600.59
30_I33_V0.5590.59
31_K39_Q0.5570.59
39_Q47_K0.5550.59
9_I13_T0.5550.59
34_K38_E0.5520.58
25_K43_L0.5510.58
14_N18_A0.5500.58
21_A26_I0.5400.57
3_I28_D0.5390.56
3_I6_F0.5300.55
33_V52_E0.5280.55
12_L48_P0.5190.54
3_I7_V0.5170.53
24_I39_Q0.5160.53
37_E45_E0.5130.53
28_D41_Q0.5110.53
5_S20_R0.5060.52
14_N17_V0.5000.51
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  
1jeyA 1 1 10.8 0.852 Contact Map
4i66A 2 0.9661 7.9 0.86 Contact Map
2vb2X 1 0.9831 6.6 0.865 Contact Map
2qcpX 1 0.9831 6.2 0.867 Contact Map
4mhrA 2 0.9492 6.1 0.868 Contact Map
2opwA 1 0.4576 5.7 0.869 Contact Map
1spuA 2 0.8644 5.5 0.87 Contact Map
2gksA 2 0.8136 5.4 0.871 Contact Map
2a1xA 1 0.5593 5.1 0.872 Contact Map
1jeyB 1 1 4.9 0.874 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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