GREMLIN Database
RL28 - 50S ribosomal protein L28
UniProt: P0A7M2 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10886
Length: 78 (73)
Sequences: 1054 (369)
Seq/√Len: 43.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
16_N26_K3.9911.00
62_K70_E3.5721.00
35_S48_T2.7031.00
7_V55_G2.3991.00
37_R46_F2.3321.00
42_S65_D2.2481.00
18_R24_A2.1661.00
17_N25_T2.1421.00
12_P28_R2.0300.99
39_W44_K2.0030.99
40_V43_E1.9290.99
38_F56_M1.8870.99
7_V67_V1.7080.98
40_V65_D1.6280.97
34_H53_A1.5630.96
18_R22_L1.5370.95
4_V11_R1.5280.95
62_K67_V1.4960.95
14_T26_K1.4400.93
66_T70_E1.4330.93
55_G58_V1.4140.93
7_V59_I1.3460.91
12_P31_P1.3290.90
33_L50_R1.3260.90
40_V64_I1.2800.89
19_S23_N1.2780.89
40_V68_L1.2660.88
52_S55_G1.2440.87
39_W46_F1.2040.85
20_H23_N1.1630.83
43_E72_R1.1240.81
62_K66_T1.0950.79
30_L33_L1.0930.79
43_E65_D1.0550.77
8_T55_G1.0450.76
43_E46_F1.0390.76
12_P60_D1.0130.74
51_V55_G0.9730.71
41_E64_I0.9720.71
48_T66_T0.9320.67
3_R33_L0.9150.66
51_V56_M0.9100.65
26_K29_F0.9040.65
14_T28_R0.8850.63
13_V29_F0.8760.62
35_S50_R0.8590.61
6_Q49_L0.8430.59
14_T30_L0.8350.59
54_K58_V0.8340.59
42_S69_A0.8280.58
54_K57_R0.7970.55
43_E67_V0.7740.53
10_K54_K0.7670.52
18_R46_F0.7670.52
3_R31_P0.7640.52
38_F64_I0.7410.50
19_S22_L0.7290.49
36_H46_F0.7280.49
67_V71_L0.7180.48
42_S64_I0.7180.48
38_F59_I0.7140.47
15_G29_F0.7130.47
39_W60_D0.6990.46
24_A35_S0.6930.45
16_N24_A0.6930.45
17_N26_K0.6900.45
17_N23_N0.6870.45
12_P30_L0.6820.44
1_M5_C0.6460.41
59_I67_V0.6400.40
68_L72_R0.6360.40
40_V47_V0.6350.40
12_P26_K0.6290.39
53_A56_M0.6250.39
10_K21_A0.5990.37
10_K52_S0.5970.37
29_F38_F0.5900.36
67_V70_E0.5900.36
14_T33_L0.5880.36
7_V71_L0.5870.36
2_S12_P0.5820.35
39_W45_R0.5810.35
36_H56_M0.5710.34
19_S31_P0.5680.34
49_L64_I0.5660.34
16_N23_N0.5520.33
47_V66_T0.5470.32
17_N27_R0.5470.32
64_I67_V0.5410.32
55_G71_L0.5400.32
30_L50_R0.5300.31
7_V48_T0.5290.31
38_F51_V0.5280.31
20_H25_T0.5270.31
41_E65_D0.5270.31
39_W59_I0.5260.30
28_R31_P0.5260.30
37_R50_R0.5250.30
45_R64_I0.5250.30
7_V70_E0.5250.30
4_V31_P0.5220.30
11_R61_K0.5190.30
3_R11_R0.5160.30
45_R56_M0.5090.29
7_V52_S0.5080.29
36_H59_I0.5060.29
53_A73_A0.5050.29
45_R57_R0.5040.29
37_R45_R0.5020.29
68_L71_L0.5000.28
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  
4tp9X 1 0.9872 100 0.199 Contact Map
3bboY 1 0.9744 100 0.212 Contact Map
1vw4S 1 1 99.9 0.304 Contact Map
3j7yX 1 0.9872 99.9 0.325 Contact Map
2zjrU 1 0.7179 99.9 0.328 Contact Map
2jz6A 1 0.9231 99.9 0.33 Contact Map
4rb61 1 0.9615 99.9 0.353 Contact Map
4ehiA 2 0.5256 9.2 0.928 Contact Map
2qneA 2 0.5641 8.7 0.929 Contact Map
4yfuA 1 0.9615 4.6 0.938 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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