GREMLIN Database
SRP40_C - SRP40, C-terminal domain
PFAM: PF05022 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 76 (76)
Sequences: 611 (398)
Seq/√Len: 45.7
META: 0.468

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
50_R54_T4.0711.00
6_D9_E3.7321.00
44_T48_G3.7161.00
38_N42_I3.3341.00
51_K54_T3.1161.00
40_D56_K3.0121.00
16_P19_A2.4111.00
52_E56_K2.1451.00
17_R74_I1.9940.99
23_Y32_D1.9610.99
20_D25_A1.7380.98
31_D35_A1.6410.97
35_A39_E1.6370.97
56_K59_G1.5210.96
40_D43_V1.4330.94
47_K54_T1.3190.91
29_G32_D1.3120.91
37_A62_R1.2780.90
37_A59_G1.2330.88
26_K72_N1.2160.87
45_R48_G1.2150.87
33_Y59_G1.1940.86
32_D67_D1.1840.86
23_Y53_K1.1600.85
69_Q72_N1.1350.84
71_V74_I1.1250.83
12_V15_D1.1230.83
59_G62_R1.1200.83
23_Y28_G1.1170.83
37_A61_Y1.1100.82
60_S63_G1.0970.81
31_D34_G1.0690.80
43_V48_G1.0170.76
22_S25_A1.0040.75
67_D70_S0.9810.74
33_Y54_T0.9680.73
37_A63_G0.9680.73
33_Y60_S0.9560.72
33_Y72_N0.9550.71
48_G51_K0.9320.70
14_V74_I0.9140.68
30_G39_E0.9070.68
40_D44_T0.8850.66
23_Y35_A0.8790.65
48_G52_E0.8650.64
24_E38_N0.8550.63
68_T71_V0.8550.63
52_E58_R0.8420.62
28_G32_D0.8380.61
30_G35_A0.8190.60
15_D18_L0.8020.58
36_K60_S0.7750.55
32_D51_K0.7670.55
56_K61_Y0.7650.54
32_D43_V0.7570.54
61_Y64_G0.7490.53
23_Y26_K0.7440.52
7_P10_W0.7340.51
7_P13_F0.7250.50
66_I72_N0.7250.50
47_K50_R0.7240.50
69_Q74_I0.7220.50
34_G72_N0.7200.50
2_F5_V0.7170.50
68_T74_I0.7110.49
3_Q6_D0.7070.49
31_D65_A0.7060.49
50_R56_K0.7060.49
56_K60_S0.6940.47
12_V16_P0.6830.46
34_G75_K0.6690.45
11_V14_V0.6690.45
12_V68_T0.6660.45
8_E69_Q0.6630.44
41_L52_E0.6630.44
3_Q8_E0.6600.44
51_K56_K0.6460.43
2_F6_D0.6440.43
25_A31_D0.6440.43
13_F19_A0.6380.42
3_Q14_V0.6350.42
11_V15_D0.6330.42
39_E43_V0.6240.41
25_A76_F0.6200.40
24_E42_I0.6080.39
3_Q45_R0.5930.38
16_P45_R0.5910.38
52_E63_G0.5860.37
59_G64_G0.5820.37
7_P38_N0.5800.37
37_A56_K0.5790.36
7_P12_V0.5750.36
5_V18_L0.5750.36
26_K29_G0.5720.36
41_L63_G0.5510.34
1_P33_Y0.5500.34
15_D19_A0.5480.34
24_E30_G0.5480.34
70_S75_K0.5440.33
32_D35_A0.5400.33
60_S66_I0.5390.33
29_G35_A0.5300.32
26_K45_R0.5300.32
46_G55_K0.5260.32
47_K69_Q0.5230.32
9_E19_A0.5210.31
37_A64_G0.5200.31
8_E15_D0.5190.31
64_G75_K0.5180.31
11_V17_R0.5130.31
14_V18_L0.5100.30
12_V17_R0.5060.30
13_F16_P0.5060.30
2_F38_N0.5000.30
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  
4nfnA 1 0.4605 4 0.92 Contact Map
3j7aH 1 0.9737 2.1 0.931 Contact Map
3tr7A 1 0.2895 2 0.931 Contact Map
4mveA 1 0.4079 2 0.932 Contact Map
1wxrA 1 0.8026 1.7 0.934 Contact Map
4btkA 1 0.4211 1.5 0.936 Contact Map
3gkuA 2 0.1579 1.4 0.938 Contact Map
4bpeY 1 0.9737 1.4 0.938 Contact Map
3j60G 1 0.9737 1.3 0.938 Contact Map
3cueA 1 0.3421 1.3 0.939 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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