GREMLIN Database
RL9 - 50S ribosomal protein L9
UniProt: P37437 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 149 (145)
Sequences: 3423 (2127)
Seq/√Len: 176.6

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_K20_N2.9091.00
62_L66_K2.9071.00
128_N140_V2.8391.00
103_Q109_K2.5811.00
101_Q104_K2.2991.00
126_Y144_H2.2741.00
69_K73_E2.2611.00
7_Q35_L2.2571.00
80_S146_K2.2391.00
128_N142_K2.2381.00
59_I63_E2.1391.00
55_K59_I1.9091.00
100_E104_K1.8921.00
5_F19_K1.8521.00
123_A127_T1.8481.00
70_E73_E1.7621.00
78_E144_H1.7181.00
78_E146_K1.7171.00
66_K70_E1.7121.00
67_S70_E1.6961.00
134_H137_V1.6911.00
67_S71_T1.6761.00
64_Q67_S1.6761.00
63_E66_K1.6321.00
48_N51_K1.6281.00
102_L110_V1.5821.00
76_T144_H1.5771.00
41_A45_S1.5451.00
63_E67_S1.5091.00
65_A134_H1.4501.00
75_L106_H1.4471.00
45_S48_N1.4441.00
9_V35_L1.4251.00
60_A64_Q1.4151.00
121_I145_V1.4021.00
18_V44_I1.3991.00
46_A50_Q1.3771.00
121_I143_V1.3691.00
26_A31_I1.3531.00
130_P138_Q1.3511.00
130_P140_V1.3391.00
76_T142_K1.3281.00
53_K57_E1.3181.00
30_L36_A1.3131.00
81_A93_V1.3121.00
102_L106_H1.3051.00
99_T115_L1.3051.00
126_Y142_K1.2901.00
66_K69_K1.2881.00
129_V143_V1.2801.00
52_Q55_K1.2721.00
81_A89_L1.2671.00
79_L101_Q1.2651.00
69_K139_A1.2611.00
54_E58_A1.2581.00
44_I48_N1.2511.00
132_K138_Q1.2381.00
42_S46_A1.2271.00
5_F13_G1.2221.00
58_A61_E1.2051.00
6_L37_V1.1981.00
77_V101_Q1.1961.00
56_K60_A1.1941.00
2_K44_I1.1791.00
73_E139_A1.1561.00
98_I117_L1.1561.00
2_K18_V1.1541.00
3_V26_A1.1521.00
115_L131_V1.1361.00
116_E132_K1.1361.00
31_I34_G1.1321.00
71_T75_L1.1231.00
53_K56_K1.1191.00
77_V102_L1.0911.00
57_E61_E1.0751.00
8_D14_K1.0741.00
102_L141_L1.0621.00
39_A44_I1.0571.00
5_F12_K1.0491.00
45_S49_G1.0451.00
12_K19_K1.0431.00
18_V47_L1.0411.00
43_N46_A1.0391.00
58_A62_L1.0350.99
29_F35_L1.0340.99
71_T108_I1.0300.99
49_G52_Q1.0170.99
51_K55_K1.0080.99
61_E64_Q1.0050.99
51_K54_E0.9980.99
42_S45_S0.9970.99
70_E74_K0.9950.99
27_H32_K0.9800.99
95_S115_L0.9760.99
4_I43_N0.9760.99
1_M26_A0.9660.99
116_E130_P0.9430.99
83_S124_L0.9130.99
98_I143_V0.9000.99
68_L114_K0.8870.98
98_I115_L0.8820.98
102_L108_I0.8810.98
62_L136_E0.8710.98
47_L51_K0.8690.98
56_K59_I0.8550.98
58_A134_H0.8550.98
79_L93_V0.8470.98
96_K100_E0.8430.98
24_G29_F0.8340.98
49_G53_K0.8320.98
98_I129_V0.8300.98
31_I38_E0.8260.97
12_K25_Y0.8240.97
7_Q15_K0.8230.97
76_T126_Y0.8230.97
8_D15_K0.8220.97
83_S87_G0.8100.97
111_D114_K0.8070.97
117_L120_G0.8040.97
4_I47_L0.8000.97
92_S122_R0.8000.97
37_V43_N0.7980.97
100_E103_Q0.7930.97
12_K22_A0.7860.97
54_E57_E0.7810.96
50_Q54_E0.7560.96
40_N43_N0.7520.96
41_A44_I0.7500.96
73_E140_V0.7450.95
84_G90_F0.7450.95
81_A97_Q0.7440.95
57_E60_A0.7310.95
117_L129_V0.7300.95
72_L139_A0.7290.95
84_G112_K0.7270.95
20_N23_D0.7260.95
79_L146_K0.7260.95
118_P130_P0.7250.95
52_Q56_K0.7240.95
16_G89_L0.7180.94
99_T103_Q0.7130.94
29_F33_K0.7130.94
84_G88_R0.7040.94
133_L137_V0.6860.93
6_L34_G0.6820.93
96_K112_K0.6760.92
87_G124_L0.6740.92
62_L134_H0.6650.92
68_L108_I0.6640.92
99_T110_V0.6630.92
120_G129_V0.6560.91
65_A137_V0.6540.91
83_S89_L0.6520.91
31_I35_L0.6520.91
77_V143_V0.6520.91
77_V106_H0.6470.91
26_A34_G0.6450.91
131_V141_L0.6450.91
72_L75_L0.6440.90
97_Q100_E0.6430.90
21_V30_L0.6400.90
16_G50_Q0.6290.89
55_K58_A0.6270.89
75_L108_I0.6250.89
72_L108_I0.6240.89
81_A86_G0.6150.88
46_A49_G0.6120.88
75_L141_L0.6080.88
4_I39_A0.6050.88
59_I68_L0.5990.87
121_I129_V0.5990.87
29_F32_K0.5920.86
60_A63_E0.5910.86
5_F36_A0.5880.86
47_L50_Q0.5870.86
6_L50_Q0.5800.85
121_I127_T0.5790.85
72_L102_L0.5710.84
75_L102_L0.5710.84
127_T130_P0.5700.84
15_K54_E0.5670.84
12_K32_K0.5590.83
38_E122_R0.5590.83
22_A36_A0.5580.83
1_M23_D0.5570.83
8_D111_D0.5560.83
114_K131_V0.5540.83
14_K17_E0.5520.82
101_Q143_V0.5460.82
3_V31_I0.5450.82
127_T145_V0.5450.82
62_L137_V0.5440.81
40_N44_I0.5400.81
15_K47_L0.5380.81
58_A135_P0.5360.81
1_M4_I0.5350.80
103_Q107_N0.5350.80
24_G36_A0.5330.80
37_V46_A0.5330.80
94_T138_Q0.5320.80
71_T107_N0.5240.79
11_G19_K0.5230.79
12_K27_H0.5220.79
102_L115_L0.5180.78
3_V10_K0.5170.78
47_L54_E0.5160.78
115_L141_L0.5150.78
94_T120_G0.5140.78
84_G91_G0.5110.77
82_K90_F0.5090.77
116_E129_V0.5070.77
9_V12_K0.5070.77
30_L89_L0.5070.77
12_K29_F0.5060.77
44_I132_K0.5040.76
60_A67_S0.5020.76
17_E51_K0.5010.76
110_V139_A0.5000.76
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  
1divA 2 1 100 0.031 Contact Map
3bboJ 1 0.9866 100 0.041 Contact Map
4tp9H 1 0.9866 100 0.042 Contact Map
4rb6I 1 0.9799 100 0.044 Contact Map
1nkwF 1 0.349 100 0.059 Contact Map
3j7yH 1 0.3624 100 0.13 Contact Map
2hbaA 3 0.349 99.9 0.551 Contact Map
1vw4G 1 0.302 99.8 0.569 Contact Map
4qjty 1 0.8523 99.8 0.573 Contact Map
3pxgA 3 0.6913 57 0.92 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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