GREMLIN Database
RL29 - 50S ribosomal protein L29
UniProt: P12873 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 66 (61)
Sequences: 1161 (529)
Seq/√Len: 67.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
17_K20_S2.7301.00
10_T13_E2.4651.00
11_T60_R2.3791.00
14_I53_M2.2611.00
9_L17_K2.2381.00
58_R61_E2.1651.00
7_R59_E2.1421.00
16_Q20_S2.1311.00
18_V53_M1.8961.00
58_R62_I1.8611.00
42_R45_E1.7871.00
23_E27_N1.7781.00
13_E16_Q1.6940.99
24_E42_R1.6430.99
49_A52_R1.5990.99
24_E27_N1.4730.99
45_E49_A1.3730.98
32_L43_I1.3700.98
21_L53_M1.3240.97
21_L49_A1.3000.97
44_R48_K1.2910.97
31_Q42_R1.2480.96
46_V50_I1.2290.96
56_V59_E1.2010.95
30_F38_E1.1810.95
19_K23_E1.1680.94
11_T57_I1.1300.93
31_Q36_Q1.0850.92
33_A36_Q1.0080.88
15_E57_I1.0030.88
15_E19_K0.9740.86
24_E30_F0.9200.83
22_K35_G0.8920.81
29_R34_T0.8910.81
4_N8_D0.8730.80
6_I14_I0.8710.80
3_A56_V0.8660.79
32_L35_G0.8570.79
12_A16_Q0.8490.78
33_A42_R0.8380.77
36_Q50_I0.8210.76
29_R33_A0.8180.75
27_N30_F0.8030.74
14_I60_R0.8010.74
25_L47_R0.7900.73
25_L50_I0.7890.73
34_T47_R0.7780.72
34_T52_R0.7760.71
35_G54_K0.7610.70
43_I54_K0.7580.70
6_I56_V0.7580.70
31_Q46_V0.7550.69
30_F42_R0.7520.69
14_I18_V0.7500.69
41_A45_E0.7450.68
42_R46_V0.7440.68
21_L40_T0.7390.68
7_R56_V0.7360.67
40_T54_K0.7170.65
2_K5_E0.7040.64
16_Q19_K0.7040.64
22_K30_F0.7040.64
22_K54_K0.7020.64
20_S23_E0.7000.63
9_L13_E0.6960.63
6_I9_L0.6890.62
12_A56_V0.6670.60
49_A58_R0.6530.58
24_E28_L0.6520.58
35_G38_E0.6430.57
11_T15_E0.6250.55
30_F41_A0.5970.51
25_L39_N0.5870.50
3_A57_I0.5680.48
22_K33_A0.5630.47
13_E17_K0.5570.47
33_A60_R0.5520.46
13_E57_I0.5490.46
43_I56_V0.5490.46
32_L54_K0.5410.45
34_T60_R0.5390.45
25_L30_F0.5370.44
54_K60_R0.5350.44
27_N35_G0.5230.43
32_L58_R0.5230.43
21_L54_K0.5220.43
30_F33_A0.5190.42
8_D58_R0.5080.41
17_K25_L0.5070.41
4_N15_E0.5070.41
7_R49_A0.5030.40
6_I38_E0.5000.40
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  
3bboZ 1 0.9394 99.9 0.184 Contact Map
1r73A 1 1 99.9 0.196 Contact Map
2zjrV 1 0.9848 99.9 0.197 Contact Map
4rb62 1 0.9545 99.9 0.198 Contact Map
3j21W 1 1 99.9 0.201 Contact Map
3j3wX 1 0.9242 99.9 0.203 Contact Map
3j61h 1 1 99.9 0.203 Contact Map
1vx73 1 1 99.9 0.203 Contact Map
4tp9Y 1 0.9545 99.9 0.207 Contact Map
1vq8V 1 0.9394 99.9 0.218 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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