GREMLIN Database
SMP - Seed maturation protein
PFAM: PF04927 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 59 (58)
Sequences: 591 (372)
Seq/√Len: 48.9
META: 0.103

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
28_Q50_Q3.9951.00
27_V49_A2.6171.00
19_V49_A2.5101.00
22_E57_E2.0971.00
24_A46_A2.0701.00
25_A47_A1.9430.99
38_N41_Q1.8670.99
3_I7_L1.8080.99
28_Q51_S1.6900.98
26_A34_A1.5890.97
13_L16_D1.5790.97
31_E44_G1.5780.97
28_Q47_A1.5150.97
29_A46_A1.5130.97
53_A56_N1.4790.96
23_D44_G1.4130.95
52_A56_N1.3690.94
19_V24_A1.2770.91
9_A13_L1.1340.86
51_S54_R1.1020.84
8_E27_V1.0670.82
36_G51_S1.0580.81
4_G18_P1.0570.81
3_I58_R1.0510.81
31_E34_A1.0500.81
23_D30_A1.0410.80
19_V27_V1.0400.80
25_A38_N1.0390.80
37_D41_Q1.0350.80
32_A48_S1.0210.79
23_D31_E1.0000.78
6_V49_A0.9980.77
19_V26_A0.9590.74
2_T5_D0.9530.74
18_P28_Q0.9340.73
32_A37_D0.9340.73
19_V31_E0.9320.72
8_E22_E0.9310.72
41_Q54_R0.9090.70
16_D44_G0.8870.69
29_A33_R0.8820.68
33_R41_Q0.8750.67
21_P51_S0.8550.66
12_G42_P0.8480.65
20_T34_A0.8410.64
20_T53_A0.8270.63
32_A40_T0.8220.63
4_G35_T0.8100.61
8_E11_A0.7970.60
12_G54_R0.7760.58
17_K45_V0.7750.58
16_D55_L0.7680.57
43_G58_R0.7480.55
12_G21_P0.7240.53
30_A53_A0.7190.52
1_I55_L0.7150.52
45_V48_S0.7060.51
30_A44_G0.6860.49
1_I38_N0.6800.48
20_T24_A0.6770.48
5_D13_L0.6650.47
18_P58_R0.6560.46
26_A55_L0.6340.44
29_A43_G0.6270.43
50_Q58_R0.6250.43
17_K33_R0.6170.42
19_V48_S0.6050.41
2_T29_A0.6040.41
22_E32_A0.6030.41
26_A57_E0.5900.40
28_Q35_T0.5870.39
24_A53_A0.5870.39
11_A18_P0.5770.38
1_I4_G0.5770.38
4_G49_A0.5740.38
20_T36_G0.5670.37
30_A52_A0.5560.36
42_P53_A0.5450.35
10_T39_Q0.5360.34
47_A51_S0.5290.34
18_P27_V0.5210.33
12_G55_L0.5200.33
5_D49_A0.5160.33
35_T50_Q0.5070.32
35_T43_G0.5030.31
33_R43_G0.5030.31
14_L49_A0.5000.31
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  
4y0bA 1 0.2542 2.8 0.893 Contact Map
4xy3A 1 0.7797 2.8 0.893 Contact Map
2vz8A 2 1 2.5 0.896 Contact Map
2gt1A 1 0.339 2.2 0.9 Contact Map
2loqA 1 0.9661 1.9 0.902 Contact Map
3zeyZ 1 0.339 1.9 0.903 Contact Map
2p5dA 1 0.4915 1.7 0.905 Contact Map
4fioA 3 1 1.7 0.906 Contact Map
3j7yZ 1 0.3729 1.7 0.906 Contact Map
4irfA 1 0.3051 1.6 0.907 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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