GREMLIN Database
DUF3460 - Protein of unknown function (DUF3460)
PFAM: PF11943 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 58 (57)
Sequences: 3156 (1485)
Seq/√Len: 196.7
META: 0.921

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
3_E11_R3.4651.00
12_E16_K2.8771.00
13_L20_L2.3511.00
17_K23_E2.1101.00
14_K21_E2.0481.00
51_Q55_V2.0431.00
19_E23_E1.9791.00
23_E26_A1.9621.00
22_A26_A1.7891.00
44_F47_A1.7851.00
6_H10_I1.7081.00
40_A44_F1.6401.00
37_D40_A1.6041.00
39_E43_E1.5761.00
8_Q12_E1.5441.00
36_I41_Q1.5231.00
3_E8_Q1.4321.00
27_G30_L1.3981.00
41_Q45_R1.3851.00
52_K57_Q1.3461.00
28_R33_D1.2401.00
21_E25_R1.2081.00
20_L23_E1.1991.00
13_L17_K1.1391.00
14_K24_Q1.0481.00
40_A43_E1.0311.00
36_I40_A1.0281.00
42_A46_E1.0271.00
27_G31_L1.0261.00
10_I14_K1.0211.00
19_E22_A1.0201.00
41_Q44_F1.0191.00
17_K20_L1.0101.00
22_A25_R0.9620.99
25_R31_L0.9520.99
38_L44_F0.8770.99
35_P38_L0.8610.99
21_E24_Q0.8380.98
12_E15_A0.8180.98
31_L36_I0.7950.98
7_T11_R0.7910.98
50_P53_P0.7870.98
23_E27_G0.7660.97
41_Q48_R0.7530.97
5_D9_F0.7520.97
49_V52_K0.7490.97
3_E6_H0.7420.97
45_R48_R0.7340.96
53_P57_Q0.7270.96
39_E42_A0.7270.96
26_A29_A0.7270.96
3_E7_T0.7130.96
20_L55_V0.7130.96
49_V55_V0.6510.93
52_K55_V0.6490.93
5_D8_Q0.6320.92
43_E47_A0.6270.92
11_R15_A0.6240.91
6_H11_R0.6090.90
6_H13_L0.6010.90
20_L30_L0.6000.90
7_T10_I0.5970.90
24_Q27_G0.5940.89
42_A45_R0.5920.89
38_L41_Q0.5870.89
38_L42_A0.5870.89
19_E26_A0.5850.89
35_P41_Q0.5800.88
25_R37_D0.5730.88
43_E46_E0.5680.87
14_K20_L0.5530.86
6_H9_F0.5500.85
6_H14_K0.5380.84
28_R34_K0.5300.83
38_L45_R0.5280.83
26_A34_K0.5280.83
6_H30_L0.5260.83
33_D42_A0.5230.83
49_V57_Q0.5200.82
23_E31_L0.5190.82
27_G34_K0.5180.82
24_Q28_R0.5150.82
27_G57_Q0.5130.81
31_L55_V0.5110.81
29_A34_K0.5030.80
13_L30_L0.5000.80
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  
1dquA 4 0.9828 7.4 0.893 Contact Map
3kfuF 2 0 6.8 0.895 Contact Map
1geaA 1 0.2759 4.9 0.902 Contact Map
3sgzA 4 0.431 4.8 0.902 Contact Map
4d10F 1 0.4138 4.4 0.905 Contact Map
3dmnA 1 0.8621 4.1 0.906 Contact Map
1odzA 1 0.3793 4.1 0.906 Contact Map
2v62A 1 0.7759 4 0.906 Contact Map
2f6mB 1 0.4655 3.4 0.91 Contact Map
2p22B 2 0.2069 3.3 0.91 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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