GREMLIN Database
DUF3007 - Protein of unknown function (DUF3007)
PFAM: PF11460 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 96 (96)
Sequences: 589 (365)
Seq/√Len: 37.3
META: 0.701

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
68_R75_V4.4461.00
77_Q81_E4.2361.00
6_V10_G4.1721.00
80_L88_L2.9101.00
66_Q70_D2.4321.00
72_E79_R2.2120.99
24_L29_L2.0270.99
88_L92_Q1.9890.99
76_L91_L1.9540.98
51_S55_F1.8410.98
64_Y68_R1.8100.97
57_V91_L1.7380.96
68_R72_E1.6880.96
69_K73_E1.6240.95
14_F18_G1.6230.95
60_G65_M1.6070.95
57_V61_K1.5090.92
78_K82_E1.4980.92
2_T5_D1.4960.92
65_M83_L1.4780.92
60_G68_R1.4710.91
9_I13_V1.4550.91
38_S50_V1.4400.91
85_P89_A1.3280.87
12_G16_L1.3100.86
34_A39_Q1.3070.86
76_L80_L1.3050.86
39_Q43_V1.2940.85
65_M72_E1.2770.84
4_I7_I1.2600.83
47_L51_S1.2260.82
17_G38_S1.2220.82
50_V57_V1.1860.80
65_M75_V1.1600.78
57_V60_G1.1450.77
47_L89_A1.1250.76
89_A93_A1.1200.75
15_L44_L1.1060.75
89_A92_Q1.0920.74
65_M68_R1.0800.73
25_Q90_K1.0770.73
78_K87_E1.0700.72
9_I86_E1.0570.71
10_G95_I1.0440.70
79_R82_E1.0410.70
42_L47_L1.0400.70
15_L18_G1.0230.69
82_E88_L0.9970.67
38_S44_L0.9870.66
3_R7_I0.9840.66
84_S87_E0.9840.66
48_G51_S0.9750.65
7_I74_A0.9710.65
7_I11_L0.9670.64
44_L48_G0.9510.63
43_V52_T0.9400.62
5_D8_L0.9300.61
92_Q96_E0.9300.61
16_L43_V0.9270.61
13_V19_L0.9170.60
36_I39_Q0.9040.59
15_L19_L0.9030.59
8_L12_G0.8990.58
12_G48_G0.8840.57
75_V82_E0.8800.57
40_A69_K0.8740.56
16_L20_G0.8710.56
42_L46_L0.8640.55
72_E75_V0.8390.53
48_G54_L0.8310.53
43_V46_L0.8240.52
20_G40_A0.8220.52
90_K94_E0.8160.51
66_Q81_E0.8050.50
44_L54_L0.7910.49
29_L41_L0.7900.49
18_G39_Q0.7690.47
15_L27_A0.7580.46
73_E83_L0.7370.44
27_A44_L0.7260.43
57_V62_M0.7250.43
14_F36_I0.7230.43
31_G87_E0.7120.42
91_L95_I0.7120.42
47_L86_E0.7080.42
70_D75_V0.7060.42
38_S64_Y0.7050.41
84_S95_I0.6880.40
64_Y72_E0.6870.40
3_R38_S0.6870.40
37_W59_T0.6840.40
11_L15_L0.6820.40
61_K66_Q0.6810.39
31_G43_V0.6760.39
55_F58_V0.6740.39
47_L50_V0.6740.39
84_S92_Q0.6680.38
81_E96_E0.6650.38
16_L23_G0.6550.37
3_R9_I0.6550.37
16_L45_G0.6540.37
66_Q72_E0.6440.36
23_G48_G0.6420.36
1_M18_G0.6290.35
75_V78_K0.6260.35
24_L38_S0.6240.35
20_G46_L0.6190.34
4_I9_I0.6090.34
60_G64_Y0.6080.33
29_L34_A0.6050.33
3_R40_A0.6020.33
1_M14_F0.5990.33
23_G33_S0.5950.32
20_G29_L0.5930.32
33_S54_L0.5810.31
58_V83_L0.5710.31
67_Q71_Y0.5710.31
17_G28_G0.5670.30
5_D9_I0.5620.30
14_F35_G0.5570.30
12_G45_G0.5560.29
25_Q85_P0.5530.29
63_T79_R0.5530.29
73_E76_L0.5460.29
45_G83_L0.5420.28
86_E89_A0.5420.28
47_L54_L0.5370.28
36_I61_K0.5320.28
31_G90_K0.5320.28
69_K91_L0.5280.27
11_L41_L0.5210.27
3_R74_A0.5200.27
23_G27_A0.5200.27
32_F68_R0.5200.27
11_L90_K0.5200.27
18_G24_L0.5170.27
29_L38_S0.5160.27
18_G22_L0.5060.26
8_L15_L0.5060.26
57_V83_L0.5040.26
26_A89_A0.5020.26
25_Q74_A0.5010.26
27_A34_A0.5010.26
86_E93_A0.5000.26
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  
2yqcA 1 0.3438 66.7 0.896 Contact Map
1jv1A 2 0.3646 60 0.9 Contact Map
4bmaA 1 0.3646 34.3 0.915 Contact Map
2i5kA 5 0.2917 30.4 0.917 Contact Map
1dgsA 1 0.4688 28.9 0.918 Contact Map
3ogzA 1 0.375 26.9 0.919 Contact Map
2a61A 2 1 24.7 0.921 Contact Map
4bqhA 1 0.4062 22.6 0.922 Contact Map
2owoA 1 0.4375 22.3 0.922 Contact Map
3nqoA 2 1 21.8 0.923 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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