GREMLIN Database
RL9 - 50S ribosomal protein L9
UniProt: P0A7R1 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10870
Length: 149 (145)
Sequences: 3424 (2110)
Seq/√Len: 175.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
2_Q20_N2.8821.00
62_L66_N2.8821.00
129_E141_K2.8271.00
104_T109_E2.6101.00
129_E143_I2.2641.00
102_A105_A2.2591.00
69_A73_N2.2561.00
7_D35_K2.2361.00
127_E145_N2.2241.00
81_A147_V2.2011.00
59_A63_A2.1161.00
101_D105_A1.9321.00
55_E59_A1.9141.00
5_L19_V1.8331.00
124_T128_H1.8251.00
70_E73_N1.7891.00
79_T147_V1.7321.00
66_N70_E1.7181.00
64_A67_A1.6951.00
79_T145_N1.6801.00
67_A70_E1.6681.00
67_A71_K1.6581.00
135_H138_V1.6561.00
63_A66_N1.6551.00
48_E51_R1.6261.00
103_V110_V1.5701.00
41_K45_E1.5651.00
77_T145_N1.5351.00
63_A67_A1.5131.00
65_A135_H1.4761.00
9_V35_K1.4341.00
60_E64_A1.4321.00
45_E48_E1.4221.00
122_L146_V1.4201.00
18_Q44_I1.4011.00
46_F50_R1.3911.00
26_A31_V1.3691.00
122_L144_V1.3641.00
131_S141_K1.3601.00
131_S139_F1.3391.00
102_A106_A1.3261.00
30_L36_A1.3251.00
77_T143_I1.3221.00
66_N69_A1.3191.00
82_S94_I1.2971.00
130_V144_V1.2941.00
53_E57_K1.2941.00
69_A140_A1.2861.00
52_A55_E1.2691.00
100_A115_V1.2601.00
54_L58_L1.2581.00
44_I48_E1.2571.00
127_E143_I1.2561.00
82_S90_L1.2451.00
6_L37_V1.2341.00
42_K46_F1.2301.00
5_L13_G1.2221.00
80_I102_A1.2161.00
133_Q139_F1.2131.00
56_A60_E1.1981.00
2_Q44_I1.1881.00
99_I117_L1.1871.00
58_L61_V1.1821.00
2_Q18_Q1.1771.00
78_V102_A1.1401.00
116_R133_Q1.1401.00
71_K75_L1.1391.00
73_N140_A1.1361.00
115_V132_F1.1351.00
3_V26_A1.1321.00
31_V34_G1.1141.00
71_K108_V1.1101.00
53_E56_A1.1091.00
78_V103_V1.1041.00
57_K61_V1.0651.00
5_L12_L1.0581.00
103_V142_V1.0571.00
39_A44_I1.0551.00
58_L62_L1.0511.00
8_K14_S1.0420.99
18_Q47_F1.0380.99
45_E49_A1.0340.99
51_R55_E1.0290.99
12_L19_V1.0280.99
43_N46_F1.0170.99
29_F35_K1.0130.99
51_R54_L1.0100.99
70_E74_A1.0050.99
96_T115_V1.0030.99
61_V64_A0.9990.99
49_A52_A0.9990.99
27_R32_P0.9940.99
75_L106_A0.9910.99
4_I43_N0.9760.99
42_K45_E0.9750.99
75_L78_V0.9620.99
1_M26_A0.9570.99
116_R131_S0.9320.99
84_A125_T0.9100.99
68_R114_E0.8930.98
97_R101_D0.8920.98
99_I144_V0.8860.98
99_I115_V0.8790.98
80_I94_I0.8770.98
103_V108_V0.8720.98
49_A53_E0.8670.98
56_A59_A0.8670.98
62_L137_E0.8510.98
99_I130_V0.8470.98
47_F51_R0.8460.98
31_V38_P0.8300.97
24_G29_F0.8270.97
7_D15_L0.8270.97
4_I47_F0.8250.97
117_L121_V0.8200.97
58_L135_H0.8190.97
37_V43_N0.8060.97
111_A114_E0.8040.97
12_L25_Y0.8030.97
8_K15_L0.7910.97
84_A88_G0.7890.97
54_L57_K0.7870.97
77_T127_E0.7860.97
93_S123_R0.7850.96
79_T106_A0.7840.96
73_N141_K0.7770.96
85_G112_K0.7700.96
101_D104_T0.7690.96
40_T43_N0.7670.96
82_S98_D0.7440.95
12_L22_K0.7340.95
85_G91_F0.7330.95
29_F33_Q0.7300.95
41_K44_I0.7290.95
75_L108_V0.7280.95
80_I147_V0.7250.95
16_G90_L0.7240.95
52_A56_A0.7180.94
20_N23_A0.7160.94
117_L130_V0.7090.94
6_L34_G0.7070.94
57_K60_E0.7060.94
85_G89_K0.6990.93
72_I140_A0.6980.93
118_P131_S0.6930.93
50_R54_L0.6880.93
97_R112_K0.6880.93
100_A104_T0.6830.93
68_R108_V0.6770.92
82_S87_E0.6720.92
72_I75_L0.6700.92
62_L135_H0.6700.92
78_V106_A0.6650.92
72_I108_V0.6550.91
31_V35_K0.6540.91
78_V144_V0.6530.91
26_A34_G0.6510.91
121_V130_V0.6470.91
100_A110_V0.6460.90
75_L142_V0.6450.90
65_A138_V0.6450.90
132_F142_V0.6450.90
21_V30_L0.6350.90
98_D101_D0.6310.89
75_L103_V0.6290.89
4_I39_A0.6260.89
118_P121_V0.6210.89
72_I103_V0.6190.88
88_G125_T0.6190.88
46_F49_A0.6180.88
134_V138_V0.6110.88
11_N19_V0.6050.87
16_G50_R0.6040.87
84_A90_L0.5950.86
59_A68_R0.5940.86
55_E58_L0.5930.86
29_F32_P0.5920.86
60_E63_A0.5910.86
128_H131_S0.5870.86
6_L50_R0.5830.85
5_L36_A0.5790.85
22_K36_A0.5770.85
14_S17_D0.5740.84
122_L130_V0.5740.84
114_E132_F0.5700.84
104_T107_G0.5650.84
12_L32_P0.5620.83
1_M23_A0.5600.83
8_K111_A0.5490.82
15_L47_F0.5470.82
38_P123_R0.5470.82
71_K107_G0.5460.81
15_L54_L0.5380.81
74_A77_T0.5360.80
122_L128_H0.5360.80
24_G36_A0.5360.80
1_M4_I0.5310.80
12_L29_F0.5310.80
103_V115_V0.5300.80
60_E67_A0.5290.79
47_F54_L0.5290.79
102_A144_V0.5280.79
3_V31_V0.5280.79
37_V46_F0.5250.79
40_T44_I0.5240.79
58_L136_S0.5240.79
47_F50_R0.5210.78
128_H146_V0.5200.78
3_V10_A0.5200.78
71_K74_A0.5130.77
80_I90_L0.5130.77
10_A88_G0.5130.77
62_L138_V0.5120.77
85_G92_G0.5110.77
12_L21_V0.5080.77
44_I133_Q0.5060.76
30_L90_L0.5020.76
95_G121_V0.5000.76
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  
4tp9H 1 1 100 0.025 Contact Map
1divA 2 0.9866 100 0.028 Contact Map
4rb6I 1 0.9732 100 0.044 Contact Map
3bboJ 1 0.9866 100 0.045 Contact Map
1nkwF 1 0.349 100 0.052 Contact Map
3j7yH 1 0.3624 100 0.131 Contact Map
2hbaA 3 0.349 99.9 0.548 Contact Map
4qjty 1 0.8523 99.8 0.574 Contact Map
1vw4G 1 0.302 99.8 0.578 Contact Map
1qzmA 1 0.5101 31.5 0.931 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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