GREMLIN Database
RS28 - 30S ribosomal protein S28e
UniProt: P57710 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 74 (63)
Sequences: 233 (98)
Seq/√Len: 12.3

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_H28_A4.1761.00
21_K28_A2.6230.92
33_C66_R2.3820.87
14_E34_R2.1870.82
49_V59_I2.1090.80
37_E41_Q1.9320.73
14_E46_T1.9080.72
17_E64_T1.8820.71
12_P35_I1.7960.67
34_R45_I1.7810.67
47_R57_D1.7180.64
29_M33_C1.6440.60
12_P44_I1.5770.57
31_V52_P1.5730.57
42_G64_T1.3960.48
32_K40_N1.3570.46
43_R57_D1.3470.45
8_E42_G1.3010.43
47_R66_R1.2760.42
29_M69_D1.2590.41
34_R46_T1.2480.40
50_L65_A1.2070.38
24_M65_A1.1690.36
11_T37_E1.1570.36
55_V62_K1.1540.36
49_V53_V1.1430.35
33_C65_A1.1210.34
32_K65_A1.0430.31
57_D69_D1.0400.31
47_R54_R1.0390.31
43_R47_R1.0370.30
24_M27_E1.0150.30
12_P18_V0.9850.28
34_R44_I0.9780.28
23_G51_G0.9450.27
8_E11_T0.9310.26
17_E46_T0.9000.25
31_V49_V0.8770.24
20_G54_R0.8740.24
62_K71_I0.8740.24
15_V53_V0.8570.23
41_Q44_I0.8560.23
23_G49_V0.8540.23
27_E46_T0.8460.23
17_E45_I0.8430.23
30_Q67_E0.8430.23
25_H68_A0.8290.22
47_R51_G0.8260.22
36_Q60_Q0.8150.22
29_M45_I0.7940.21
45_I48_N0.7930.21
27_E62_K0.7850.21
51_G67_E0.7760.20
35_I60_Q0.7720.20
17_E55_V0.7670.20
52_P57_D0.7530.20
48_N66_R0.7390.19
14_E44_I0.7380.19
63_E71_I0.7170.19
28_A65_A0.7150.19
12_P17_E0.7050.18
9_G36_Q0.7040.18
47_R69_D0.6850.18
27_E64_T0.6790.17
19_V46_T0.6700.17
44_I55_V0.6630.17
28_A45_I0.6450.16
60_Q71_I0.6430.16
23_G50_L0.6410.16
48_N51_G0.6320.16
23_G26_G0.6300.16
10_A60_Q0.6200.16
13_A63_E0.6190.16
22_T54_R0.6050.15
33_C69_D0.6030.15
10_A58_V0.6010.15
35_I59_I0.5890.15
47_R68_A0.5840.15
37_E44_I0.5810.15
12_P34_R0.5760.15
33_C43_R0.5740.15
7_E56_G0.5710.15
19_V37_E0.5630.14
29_M54_R0.5410.14
15_V36_Q0.5380.14
19_V44_I0.5300.14
9_G16_I0.5270.13
16_I69_D0.5230.13
16_I45_I0.5230.13
31_V56_G0.5200.13
21_K40_N0.5160.13
35_I58_V0.5150.13
17_E52_P0.5050.13
43_R58_V0.5000.13
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  
1ny4A 1 0.9459 100 0.16 Contact Map
1ne3A 1 0.9189 100 0.169 Contact Map
3j20X 1 0.9459 100 0.171 Contact Map
4bpe1 1 0.8919 100 0.177 Contact Map
3zeyZ 1 0.8784 100 0.185 Contact Map
4w23c 1 0.8649 100 0.185 Contact Map
3j7a5 1 0.7838 100 0.188 Contact Map
4ujpd 1 0.8514 100 0.194 Contact Map
2m1lA 2 0.7432 10.2 0.924 Contact Map
3j9tA 1 0.9595 8.4 0.927 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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