GREMLIN Database
RL35 - 50S ribosomal protein L35
UniProt: P0A7Q1 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11231
Length: 65 (62)
Sequences: 1164 (542)
Seq/√Len: 68.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
8_R11_A4.3301.00
32_I35_K3.5181.00
54_D57_L2.2541.00
29_L45_R2.1861.00
16_K22_F1.9881.00
51_S54_D1.8001.00
39_K43_H1.7991.00
26_H48_A1.7881.00
7_V61_C1.6851.00
22_F58_V1.5140.99
50_V58_V1.4970.99
23_K49_M1.4590.99
37_A41_K1.3710.98
25_K45_R1.3620.98
15_K23_K1.3320.97
10_A61_C1.3130.97
21_G49_M1.3110.97
16_K59_I1.2250.96
58_V61_C1.2220.96
10_A14_F1.1940.95
26_H29_L1.1550.94
32_I40_R1.1530.94
27_A54_D1.1430.94
52_K55_L1.1420.94
17_T21_G1.1420.94
6_T11_A1.1420.94
40_R44_L1.1340.94
17_T49_M1.1220.93
25_K30_R1.1040.93
55_L59_I1.1010.92
23_K47_K1.0870.92
22_F59_I1.0830.92
25_K29_L1.0550.91
38_T41_K1.0540.91
28_N40_R1.0450.90
22_F62_L1.0450.90
17_T23_K1.0060.89
24_H48_A0.9920.88
24_H50_V0.9670.87
7_V10_A0.9640.86
35_K40_R0.8860.81
42_R45_R0.8700.80
34_T38_T0.8670.80
6_T62_L0.8670.80
9_G34_T0.8620.80
18_G49_M0.8620.80
30_R43_H0.8490.79
57_L61_C0.8470.78
4_I8_R0.8140.76
53_G56_G0.8100.75
7_V34_T0.7920.74
26_H46_P0.7850.73
33_L41_K0.7800.72
37_A40_R0.7690.71
24_H27_A0.7620.71
57_L60_A0.7300.67
22_F50_V0.7300.67
30_R40_R0.7240.67
33_L40_R0.7070.65
10_A33_L0.6770.62
29_L33_L0.6650.60
51_S55_L0.6610.60
56_G60_A0.6570.59
22_F55_L0.6500.58
34_T40_R0.6440.58
19_K49_M0.6430.58
42_R46_P0.6330.56
50_V56_G0.6290.56
18_G21_G0.6240.55
26_H43_H0.6220.55
21_G57_L0.6210.55
43_H46_P0.6170.54
38_T45_R0.6160.54
24_H46_P0.5950.52
50_V61_C0.5920.51
8_R38_T0.5910.51
32_I36_K0.5820.50
18_G22_F0.5770.50
44_L61_C0.5670.48
38_T44_L0.5600.48
37_A43_H0.5540.47
2_P33_L0.5530.47
26_H44_L0.5480.46
24_H36_K0.5400.45
35_K38_T0.5340.45
4_I57_L0.5330.44
4_I41_K0.5320.44
53_G60_A0.5320.44
6_T13_R0.5230.43
14_F58_V0.5170.43
51_S60_A0.5140.42
52_K56_G0.5030.41
39_K56_G0.5000.41
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  
4rb68 1 0.9846 99.9 0.093 Contact Map
2zjr3 1 0.9692 99.9 0.095 Contact Map
3bbo5 1 0.9538 99.9 0.106 Contact Map
1vw4Z 1 0.9538 99.9 0.122 Contact Map
4tp93 1 0.9846 99.9 0.134 Contact Map
3j7y3 1 1 99.9 0.181 Contact Map
4xbaA 2 0.3231 4.6 0.92 Contact Map
4w91A 2 0.2154 4.2 0.921 Contact Map
3ivrA 2 0 4 0.922 Contact Map
3j8eG 3 0.4 3.1 0.926 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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