GREMLIN Database
DUF3499 - Protein of unknown function (DUF3499)
PFAM: PF12005 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 124 (121)
Sequences: 1830 (1031)
Seq/√Len: 93.7
META: 0.727

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
76_E80_D4.0441.00
40_Y50_L2.9261.00
112_E115_R2.7101.00
39_S51_T2.4261.00
111_E123_P2.4081.00
63_G68_P2.2861.00
44_E48_E2.2301.00
3_R10_G2.2271.00
72_S76_E2.1391.00
92_P95_A2.0081.00
113_G123_P1.9121.00
111_E114_R1.8931.00
52_A58_V1.8881.00
11_R45_E1.8671.00
28_L61_L1.7521.00
18_T27_V1.7361.00
104_R108_P1.6671.00
36_E40_Y1.6131.00
72_S80_D1.6081.00
57_E60_R1.5951.00
92_P98_P1.5861.00
65_F68_P1.5771.00
4_C9_C1.5741.00
26_A52_A1.5711.00
69_G72_S1.4250.99
20_V24_S1.4230.99
99_A102_P1.4180.99
40_Y58_V1.4020.99
28_L63_G1.3910.99
50_L71_S1.3840.99
92_P97_A1.3560.99
97_A100_A1.3370.99
16_T41_D1.3340.99
20_V23_D1.3330.99
45_E49_R1.3210.99
5_S19_Y1.2800.99
98_P103_A1.2800.99
51_T59_V1.2780.99
78_L85_A1.2670.99
114_R117_G1.2630.99
66_A69_G1.2600.99
15_A57_E1.2570.99
17_L21_Y1.2490.99
110_P123_P1.2360.98
71_S86_A1.2300.98
51_T76_E1.2290.98
6_R26_A1.2040.98
21_Y24_S1.1950.98
54_R58_V1.1680.98
61_L123_P1.1680.98
26_A84_E1.1640.98
29_G75_L1.1320.97
94_A97_A1.1240.97
19_Y38_H1.0560.96
95_A100_A1.0500.96
33_T38_H1.0440.96
101_P105_P1.0420.96
8_A61_L1.0370.96
101_P104_R1.0250.95
102_P108_P1.0240.95
60_R78_L1.0120.95
6_R9_C0.9960.94
117_G122_L0.9900.94
97_A101_P0.9550.93
93_P97_A0.9550.93
28_L50_L0.9410.93
98_P106_A0.9380.92
70_P86_A0.9370.92
52_A61_L0.9360.92
106_A109_G0.9340.92
22_A72_S0.9300.92
17_L38_H0.9290.92
95_A103_A0.9250.92
7_T58_V0.9250.92
63_G66_A0.9230.92
26_A50_L0.9150.91
39_S123_P0.9120.91
18_T29_G0.9100.91
32_A73_D0.8990.91
98_P102_P0.8960.91
120_R123_P0.8950.91
15_A47_A0.8940.91
2_R16_T0.8920.90
45_E72_S0.8870.90
98_P105_P0.8870.90
9_C13_A0.8850.90
83_R86_A0.8790.90
39_S69_G0.8730.89
105_P108_P0.8720.89
108_P111_E0.8640.89
64_D87_R0.8580.89
98_P108_P0.8500.88
76_E122_L0.8370.87
94_A98_P0.8340.87
39_S65_F0.8220.86
62_A70_P0.8190.86
95_A110_P0.8180.86
96_P100_A0.8170.86
15_A78_L0.8070.85
84_E116_R0.7960.85
50_L58_V0.7920.84
24_S51_T0.7890.84
28_L47_A0.7870.84
10_G15_A0.7860.84
93_P99_A0.7810.83
2_R41_D0.7760.83
47_A65_F0.7760.83
105_P109_G0.7680.82
40_Y71_S0.7610.82
28_L58_V0.7560.81
90_R96_P0.7510.81
95_A101_P0.7460.81
43_C46_H0.7400.80
15_A22_A0.7400.80
45_E66_A0.7380.80
99_A103_A0.7370.80
43_C56_W0.7360.80
46_H56_W0.7360.80
64_D67_P0.7360.80
43_C53_P0.7170.78
46_H53_P0.7170.78
30_P60_R0.7150.78
53_P56_W0.7110.77
60_R82_V0.7100.77
90_R97_A0.7040.77
16_T29_G0.6980.76
3_R13_A0.6980.76
7_T15_A0.6940.76
34_Y40_Y0.6860.75
100_A105_P0.6850.75
70_P81_A0.6840.75
19_Y70_P0.6830.74
95_A98_P0.6820.74
39_S76_E0.6730.73
101_P112_E0.6650.73
22_A69_G0.6510.71
88_P94_A0.6500.71
20_V61_L0.6450.70
91_P95_A0.6430.70
96_P110_P0.6420.70
62_A65_F0.6390.70
99_A106_A0.6340.69
102_P106_A0.6340.69
103_A106_A0.6180.67
27_V74_D0.6170.67
104_R109_G0.6170.67
91_P102_P0.6150.67
23_D74_D0.6120.66
76_E86_A0.6050.65
99_A105_P0.5960.64
11_R48_E0.5860.63
96_P99_A0.5850.63
23_D33_T0.5830.62
112_E123_P0.5810.62
106_A110_P0.5810.62
15_A35_A0.5780.62
21_Y37_P0.5770.62
90_R93_P0.5750.61
108_P112_E0.5750.61
34_Y48_E0.5740.61
92_P108_P0.5720.61
51_T123_P0.5710.61
38_H84_E0.5680.60
88_P91_P0.5590.59
5_S40_Y0.5540.59
11_R14_V0.5510.58
100_A103_A0.5460.57
29_G41_D0.5460.57
44_E49_R0.5400.57
24_S39_S0.5400.57
6_R24_S0.5370.56
64_D68_P0.5300.55
69_G76_E0.5280.55
38_H51_T0.5230.54
7_T10_G0.5180.54
100_A104_R0.5180.54
113_G117_G0.5150.53
27_V36_E0.5150.53
24_S66_A0.5140.53
91_P97_A0.5090.52
48_E62_A0.5050.52
32_A115_R0.5000.51
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  
3zey1 1 0.5887 11 0.936 Contact Map
4bpeW 1 0.6694 6.8 0.942 Contact Map
1w4rA 3 0.3387 6.8 0.942 Contact Map
3j7aF 1 0.6694 5.7 0.944 Contact Map
3j60E 1 0.3952 5.6 0.945 Contact Map
4ujpF 1 0.6694 5.4 0.945 Contact Map
1onvB 1 0 4.4 0.947 Contact Map
1pxeA 1 0.371 3.2 0.95 Contact Map
4guaA 3 0.9194 3 0.951 Contact Map
3avrA 1 0.5403 2.7 0.953 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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