GREMLIN Database
DUF3425 - Domain of unknown function (DUF3425)
PFAM: PF11905 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 105 (91)
Sequences: 1356 (1039)
Seq/√Len: 108.9
META: 0.173

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
25_T47_D4.6241.00
66_D92_K3.8231.00
27_L47_D3.4361.00
48_N99_G2.4401.00
21_S80_P2.4201.00
44_R48_N2.3851.00
26_P30_T2.3851.00
11_T14_N2.2751.00
87_E91_R2.1881.00
70_G74_W2.1691.00
65_R69_G2.1011.00
37_I49_L1.8191.00
28_Q38_D1.8101.00
10_P14_N1.7471.00
62_E92_K1.7431.00
20_P23_R1.7011.00
36_W45_L1.7001.00
70_G73_V1.6201.00
61_D64_C1.6091.00
64_C68_V1.5031.00
18_L69_G1.4121.00
23_R85_V1.3591.00
21_S42_W1.3341.00
37_I68_V1.3260.99
12_Q16_E1.3190.99
73_V84_E1.2920.99
25_T50_I1.2790.99
75_G82_N1.2130.99
36_W82_N1.1880.99
49_L57_E1.1580.99
24_P41_P1.1340.98
85_V90_L1.1310.98
88_G92_K1.1220.98
22_L92_K1.1170.98
22_L84_E1.0950.98
84_E90_L1.0900.98
24_P33_H1.0720.98
27_L50_I1.0680.98
19_P40_L1.0650.98
49_L96_L1.0350.97
19_P22_L1.0350.97
12_Q15_Y1.0230.97
77_P84_E1.0130.97
27_L51_R1.0060.97
61_D65_R0.9950.96
73_V76_D0.9360.95
24_P29_L0.9290.95
48_N98_D0.9210.94
10_P15_Y0.9150.94
78_W82_N0.8780.93
23_R43_P0.8500.92
71_L85_V0.8500.92
52_A95_W0.8480.92
60_E64_C0.8430.91
60_E79_D0.8420.91
19_P83_W0.8400.91
58_Y96_L0.8320.91
18_L91_R0.8220.90
22_L59_D0.8200.90
63_L67_L0.8180.90
42_W45_L0.8020.89
87_E90_L0.8020.89
13_E16_E0.7920.89
18_L50_I0.7730.87
90_L97_L0.7690.87
65_R72_I0.7670.87
71_L74_W0.7650.87
84_E97_L0.7560.86
45_L80_P0.7560.86
26_P47_D0.7550.86
27_L31_V0.7540.86
30_T47_D0.7510.86
15_Y23_R0.7370.85
44_R98_D0.7370.85
39_L63_L0.7340.84
55_Q58_Y0.7300.84
37_I50_I0.7230.84
14_N17_R0.7190.83
23_R39_L0.7170.83
27_L37_I0.7160.83
69_G88_G0.7160.83
63_L69_G0.7120.83
21_S29_L0.7100.82
39_L72_I0.7080.82
85_V99_G0.7010.82
28_Q46_R0.6920.81
55_Q60_E0.6890.81
27_L88_G0.6870.80
31_V47_D0.6830.80
40_L68_V0.6810.80
34_H64_C0.6690.79
27_L48_N0.6620.78
10_P13_E0.6600.78
58_Y79_D0.6600.78
53_F58_Y0.6580.77
86_G90_L0.6490.76
45_L49_L0.6430.76
44_R47_D0.6400.75
60_E65_R0.6390.75
9_S12_Q0.6330.75
20_P29_L0.6320.75
60_E63_L0.6280.74
30_T51_R0.6270.74
51_R98_D0.6240.74
90_L98_D0.6070.72
32_P56_G0.6030.71
61_D68_V0.5960.70
70_G84_E0.5930.70
25_T32_P0.5920.70
9_S13_E0.5880.69
36_W76_D0.5860.69
74_W84_E0.5800.68
18_L80_P0.5720.67
16_E45_L0.5710.67
29_L34_H0.5680.67
59_D92_K0.5650.66
43_P54_H0.5530.64
88_G91_R0.5530.64
35_P60_E0.5530.64
60_E66_D0.5500.64
82_N93_W0.5480.64
35_P75_G0.5460.63
54_H58_Y0.5420.63
30_T97_L0.5420.63
49_L88_G0.5390.63
34_H37_I0.5360.62
12_Q85_V0.5340.62
64_C67_L0.5320.62
26_P81_R0.5270.61
35_P41_P0.5200.60
66_D77_P0.5110.58
20_P92_K0.5090.58
44_R99_G0.5050.58
69_G86_G0.5020.57
14_N19_P0.5000.57
23_R44_R0.5000.57
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  
1m3wA 3 0.2667 8.2 0.921 Contact Map
4dx8H 1 0.381 3.4 0.934 Contact Map
2o62A 1 0.6667 2.3 0.94 Contact Map
2om2B 1 0.2095 1.7 0.944 Contact Map
4lnsA 2 0.9429 1.6 0.945 Contact Map
1sesA 2 0.3238 1.4 0.946 Contact Map
2o61A 1 0.7048 1.4 0.947 Contact Map
2qyuA 1 0.9429 1.2 0.948 Contact Map
2yijA 2 0.3429 1.1 0.949 Contact Map
1d02A 2 0.3905 1.1 0.95 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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