GREMLIN Database
DOG1 - Seed dormancy control
PFAM: PF14144 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 77 (75)
Sequences: 791 (468)
Seq/√Len: 54.1
META: 0.078

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
33_F72_L3.0731.00
32_Y50_G2.7591.00
63_I68_P2.3111.00
67_R76_Y2.2911.00
29_Y45_F2.1821.00
60_F75_L2.0541.00
23_D67_R1.8850.99
31_E54_T1.8580.99
15_D19_R1.8490.99
29_Y36_K1.7870.99
36_K39_A1.7850.99
48_L59_C1.6500.99
59_C74_L1.6300.98
13_A74_L1.6160.98
3_N7_A1.5700.98
19_R27_A1.4760.97
56_A59_C1.4700.97
66_F70_E1.4530.97
28_H44_V1.4450.97
36_K45_F1.3940.96
27_A55_P1.3790.96
46_H55_P1.3560.95
49_S60_F1.3370.95
58_R66_F1.2960.94
45_F66_F1.2390.92
17_E60_F1.2380.92
18_L23_D1.2310.92
20_L59_C1.2080.91
53_K59_C1.2000.91
14_S17_E1.1510.89
11_A75_L1.1370.88
8_A13_A1.1320.88
32_Y61_L1.1110.87
16_N20_L1.1030.87
34_R38_A1.0970.87
66_F71_L1.0940.86
27_A51_M1.0930.86
11_A15_D1.0500.84
62_W67_R1.0420.84
36_K65_G1.0280.83
21_L25_V1.0220.82
54_T70_E1.0180.82
33_F66_F0.9920.81
4_E74_L0.9750.79
28_H55_P0.9750.79
26_L67_R0.9730.79
36_K66_F0.9590.78
18_L63_I0.9590.78
48_L64_G0.9530.78
12_H26_L0.9530.78
35_L71_L0.9280.76
9_L69_S0.9250.76
53_K73_K0.9090.74
46_H59_C0.9000.74
60_F70_E0.8950.73
3_N11_A0.8900.73
57_E62_W0.8820.72
4_E10_Q0.8440.69
41_K44_V0.8250.67
70_E73_K0.8150.66
34_R42_A0.7990.65
41_K53_K0.7990.65
13_A17_E0.7950.64
35_L73_K0.7900.64
62_W65_G0.7840.63
3_N74_L0.7760.62
29_Y51_M0.7370.58
2_I25_V0.7310.58
6_R9_L0.7220.57
59_C66_F0.7080.55
66_F76_Y0.6920.54
3_N9_L0.6890.53
65_G76_Y0.6780.52
7_A11_A0.6760.52
17_E35_L0.6730.52
33_F36_K0.6670.51
2_I7_A0.6660.51
44_V69_S0.6650.51
73_K76_Y0.6610.50
11_A43_D0.6570.50
6_R22_V0.6520.49
13_A16_N0.6480.49
17_E20_L0.6460.49
32_Y74_L0.6390.48
39_A58_R0.6300.47
19_R38_A0.6280.47
21_L34_R0.6230.46
63_I72_L0.6130.45
50_G61_L0.5980.44
51_M73_K0.5740.41
29_Y71_L0.5740.41
44_V56_A0.5730.41
35_L55_P0.5640.40
8_A11_A0.5620.40
2_I10_Q0.5530.39
9_L24_K0.5510.39
50_G58_R0.5440.38
3_N31_E0.5430.38
24_K38_A0.5420.38
6_R39_A0.5370.37
66_F69_S0.5370.37
18_L22_V0.5360.37
32_Y37_S0.5320.37
23_D27_A0.5290.37
45_F49_S0.5130.35
59_C73_K0.5110.35
22_V38_A0.5110.35
27_A34_R0.5090.35
14_S75_L0.5080.34
17_E23_D0.5040.34
53_K61_L0.5000.34
33_F47_L0.5000.34
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  
3h0gD 1 0.961 29.5 0.889 Contact Map
3lj5A 3 0.6623 18 0.9 Contact Map
1vt0M 4 0.6623 15.6 0.902 Contact Map
1slqA 6 0.3506 10.1 0.91 Contact Map
4d6kA 2 0.8312 10 0.91 Contact Map
2c35A 1 0.974 8.5 0.913 Contact Map
4ywtA 1 0.8571 8.3 0.913 Contact Map
2arhA 3 0.4416 7.4 0.915 Contact Map
3b21A 1 0.8052 6.7 0.917 Contact Map
4rp3A 2 0.8442 5.9 0.919 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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