GREMLIN Database
RL29 - 50S ribosomal protein L29
UniProt: P0A7M6 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10887
Length: 63 (60)
Sequences: 1226 (642)
Seq/√Len: 82.9

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_E20_N2.8841.00
58_N61_A2.4321.00
10_S13_E2.3971.00
11_V60_K2.3731.00
23_R27_N2.2451.00
14_L53_V2.0991.00
9_K17_E2.0761.00
7_R59_E2.0661.00
16_T20_N2.0341.00
18_L53_V1.8031.00
49_D52_R1.6671.00
24_E42_L1.6411.00
13_E16_T1.5931.00
42_L45_Q1.5270.99
21_L53_V1.4850.99
24_E27_N1.4310.99
32_A43_L1.4280.99
44_K48_R1.4170.99
56_L59_E1.3230.99
11_V57_L1.2640.98
21_L49_D1.2400.98
45_Q49_D1.1800.97
31_Q42_L1.1700.97
30_M38_Q1.1700.97
19_L23_R1.0800.95
46_V50_V1.0750.95
25_Q47_R1.0380.94
42_L46_V1.0020.93
6_L14_L0.9810.92
3_A56_L0.9540.91
15_N57_L0.9510.90
32_A35_G0.9410.90
36_Q50_V0.8850.87
34_S52_R0.8850.87
15_N19_L0.8810.87
24_E30_M0.8690.86
34_S47_R0.8640.86
31_Q36_Q0.8480.85
29_R33_A0.8420.84
2_K5_E0.8320.83
22_L30_M0.8240.83
7_R56_L0.8230.83
35_G54_K0.8120.82
30_M33_A0.7990.81
22_L35_G0.7910.80
39_Q42_L0.7890.80
27_N30_M0.7870.80
6_L56_L0.7870.80
40_S54_K0.7870.80
29_R34_S0.7810.79
25_Q50_V0.7790.79
16_T19_L0.7760.79
41_H45_Q0.7460.76
33_A36_Q0.7430.76
14_L60_K0.7430.76
30_M42_L0.7340.75
22_L54_K0.7300.75
33_A42_L0.7080.72
49_D58_N0.7040.72
13_E17_E0.6990.71
30_M41_H0.6930.71
43_L54_K0.6900.70
35_G38_Q0.6830.70
5_E8_E0.6710.68
2_K49_D0.6660.68
9_K13_E0.6550.66
6_L9_K0.6480.66
21_L54_K0.6430.65
4_K8_E0.6390.65
12_E16_T0.6360.64
33_A60_K0.6140.61
8_E58_N0.6070.61
31_Q46_V0.6050.60
25_Q30_M0.5950.59
4_K49_D0.5820.57
6_L38_Q0.5770.57
11_V15_N0.5700.56
9_K52_R0.5660.55
14_L18_L0.5650.55
24_E28_L0.5610.55
12_E15_N0.5600.55
20_N23_R0.5540.54
20_N58_N0.5540.54
24_E35_G0.5450.53
22_L33_A0.5410.52
27_N35_G0.5340.51
3_A16_T0.5260.50
40_S43_L0.5040.47
25_Q61_A0.5010.47
32_A58_N0.5000.47
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 0.9841 99.9 0.166 Contact Map
4tp9Y 1 1 99.9 0.172 Contact Map
4rb62 1 1 99.9 0.177 Contact Map
2zjrV 1 1 99.9 0.178 Contact Map
1r73A 1 1 99.9 0.178 Contact Map
3j61h 1 1 99.9 0.18 Contact Map
1vx73 1 1 99.9 0.181 Contact Map
3j21W 1 1 99.9 0.186 Contact Map
3zf7k 1 0.3968 99.9 0.191 Contact Map
4a17U 1 1 99.9 0.191 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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