GREMLIN Database
RS9 - 30S ribosomal protein S9
UniProt: Q9HQJ2 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 132 (123)
Sequences: 2789 (1252)
Seq/√Len: 112.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
120_G126_R4.5281.00
51_S55_L4.2871.00
63_I77_V2.9221.00
82_A106_L2.7931.00
16_A80_A2.6461.00
86_V106_L2.4281.00
113_R122_G2.4131.00
120_G127_Y2.3411.00
122_G125_A2.1451.00
59_V88_H2.1401.00
121_P127_Y2.1131.00
4_N17_T2.0101.00
46_E105_L1.8891.00
96_D100_E1.8621.00
38_E41_R1.8211.00
46_E78_R1.8071.00
23_G60_D1.8071.00
11_T112_Q1.7541.00
32_V41_R1.7421.00
24_R31_P1.7321.00
19_S62_D1.6851.00
8_K83_R1.6531.00
86_V95_R1.6451.00
48_F61_I1.6431.00
36_E41_R1.6381.00
24_R60_D1.6281.00
121_P125_A1.5601.00
95_R99_R1.5441.00
49_R56_R1.5391.00
55_L94_L1.5271.00
21_G60_D1.5111.00
50_I103_R1.4921.00
52_G56_R1.4761.00
51_S94_L1.4061.00
43_K46_E1.3821.00
65_V77_V1.3381.00
35_V77_V1.3241.00
100_E103_R1.3091.00
30_Q33_E1.2880.99
75_D78_R1.2670.99
71_A75_D1.2230.99
55_L58_D1.2170.99
32_V44_M1.2050.99
22_E60_D1.1890.99
113_R116_K1.1290.99
45_L56_R1.1070.98
5_T84_G1.1010.98
121_P126_R1.0790.98
40_A70_F1.0720.98
9_K75_D1.0680.98
55_L59_V1.0460.98
114_E117_K1.0440.98
88_H94_L1.0350.97
8_K13_V1.0300.97
20_D58_D1.0280.97
26_R62_D1.0240.97
91_D94_L1.0180.97
122_G127_Y0.9940.97
19_S60_D0.9840.96
44_M47_P0.9820.96
18_V84_G0.9780.96
6_S80_A0.9710.96
68_G72_G0.9670.96
55_L91_D0.9590.96
40_A71_A0.9570.96
80_A108_N0.9500.96
17_T64_D0.9380.95
78_R105_L0.9310.95
43_K75_D0.9300.95
8_K79_T0.9080.95
8_K112_Q0.9050.94
42_L46_E0.8980.94
37_P70_F0.8840.94
44_M74_A0.8810.94
122_G126_R0.8810.94
12_A72_G0.8580.93
29_S64_D0.8510.92
45_L48_F0.8500.92
97_A103_R0.8440.92
72_G75_D0.8410.92
82_A86_V0.8390.92
15_R64_D0.8270.91
118_W129_K0.8170.91
43_K74_A0.8120.91
79_T108_N0.8100.90
50_I97_A0.8080.90
50_I105_L0.8060.90
18_V61_I0.8030.90
39_M42_L0.8010.90
14_A65_V0.8000.90
45_L49_R0.7990.90
5_T16_A0.7940.90
107_V110_V0.7820.89
37_P40_A0.7810.89
99_R107_V0.7790.89
125_A129_K0.7760.88
51_S98_F0.7760.88
22_E42_L0.7700.88
26_R31_P0.7660.88
18_V59_V0.7570.87
99_R106_L0.7560.87
86_V94_L0.7550.87
32_V36_E0.7530.87
52_G55_L0.7450.86
4_N64_D0.7380.86
48_F57_G0.7370.86
113_R125_A0.7350.86
38_E42_L0.7330.85
116_K121_P0.7310.85
42_L45_L0.7290.85
5_T87_E0.7240.85
30_Q36_E0.7190.84
97_A100_E0.7130.84
118_W127_Y0.7110.84
116_K122_G0.7070.83
36_E70_F0.7040.83
26_R29_S0.7010.83
95_R106_L0.7000.83
25_V32_V0.6920.82
48_F81_I0.6910.82
12_A68_G0.6870.82
36_E44_M0.6870.82
41_R44_M0.6840.81
36_E77_V0.6830.81
43_K105_L0.6570.79
7_G14_A0.6560.78
19_S88_H0.6510.78
92_A96_D0.6490.78
42_L49_R0.6410.77
48_F59_V0.6370.76
48_F55_L0.6210.75
25_V44_M0.6200.75
4_N15_R0.6160.74
26_R64_D0.6090.73
5_T18_V0.6080.73
36_E40_A0.6070.73
7_G13_V0.6050.73
35_V44_M0.6030.72
16_A125_A0.6030.72
43_K78_R0.6020.72
18_V81_I0.6000.72
27_I31_P0.5980.72
113_R121_P0.5900.71
51_S56_R0.5830.70
35_V115_S0.5830.70
15_R65_V0.5790.69
17_T72_G0.5770.69
17_T113_R0.5770.69
121_P129_K0.5770.69
37_P49_R0.5760.69
12_A76_A0.5760.69
98_F108_N0.5650.68
40_A43_K0.5620.67
124_R132_R0.5600.67
38_E70_F0.5600.67
13_V118_W0.5600.67
122_G130_S0.5550.66
113_R118_W0.5550.66
7_G79_T0.5530.66
121_P128_Q0.5520.66
92_A97_A0.5520.66
81_I98_F0.5520.66
5_T80_A0.5520.66
120_G125_A0.5440.65
118_W130_S0.5420.64
35_V71_A0.5410.64
6_S98_F0.5410.64
17_T62_D0.5390.64
46_E129_K0.5380.64
110_V128_Q0.5360.64
30_Q72_G0.5360.64
121_P130_S0.5310.63
47_P51_S0.5300.63
116_K119_G0.5230.62
116_K120_G0.5220.62
97_A105_L0.5190.61
27_I65_V0.5170.61
30_Q112_Q0.5160.61
13_V66_A0.5110.60
83_R108_N0.5100.60
104_S107_V0.5030.59
116_K123_A0.5020.59
34_L131_Y0.5010.58
37_P41_R0.5000.58
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  
3j20K 1 1 100 0.046 Contact Map
3j60Q 1 0.9015 100 0.064 Contact Map
4w23Q 1 1 100 0.064 Contact Map
4ujpR 1 1 100 0.064 Contact Map
3j7aM 1 0.9924 100 0.068 Contact Map
4bpeI 1 1 100 0.069 Contact Map
4tp8I 1 0.9545 100 0.073 Contact Map
4rb5I 1 0.9545 100 0.073 Contact Map
3zeyK 1 1 100 0.076 Contact Map
3bbnI 1 0.947 100 0.077 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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