GREMLIN Database
TSR3 - Probable ribosome biogenesis protein VNG_2075C
UniProt: Q9HNJ6 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 165 (159)
Sequences: 502 (310)
Seq/√Len: 24.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
55_D58_M6.7361.00
17_T101_N3.8921.00
103_V123_L3.4201.00
15_K92_V2.9401.00
61_A102_T2.8941.00
147_E151_E2.8270.99
68_T71_R2.8050.99
89_A135_L2.8010.99
50_L109_A2.4100.98
130_H134_E2.3310.98
3_L110_L2.1170.96
93_N99_Q2.1090.96
3_L106_F2.1030.96
110_L118_R2.0320.95
5_V18_A1.9790.94
103_V126_F1.9680.94
41_V78_G1.8780.93
141_R144_A1.8590.92
148_D151_E1.7950.91
59_L109_A1.7830.90
49_A153_V1.7580.90
111_A116_W1.7560.90
12_D15_K1.7280.89
43_N62_L1.6980.88
43_N46_A1.6710.87
131_T134_E1.6330.86
117_E150_S1.6290.86
59_L106_F1.6220.86
146_C155_V1.6040.85
107_A123_L1.6010.85
140_L144_A1.5780.84
158_A162_A1.4890.80
20_K103_V1.4670.79
36_T102_T1.4540.79
20_K23_R1.4360.78
30_H60_V1.3750.75
27_A106_F1.3720.74
11_D16_C1.3660.74
119_A133_L1.3580.74
82_A102_T1.3390.73
53_A148_D1.3360.72
153_V156_Q1.3320.72
85_F98_F1.3270.72
49_A156_Q1.2940.70
4_H30_H1.2850.69
116_W141_R1.2810.69
69_A74_F1.2790.69
130_H137_E1.2720.69
103_V125_K1.2400.67
63_D127_T1.2370.66
20_K125_K1.2230.65
3_L122_L1.2170.65
125_K130_H1.1960.64
154_A158_A1.1880.63
137_E154_A1.1870.63
48_R53_A1.1760.62
6_R30_H1.1750.62
111_A140_L1.1650.62
32_T76_I1.1630.62
54_D81_R1.1460.60
11_D18_A1.1440.60
141_R150_S1.1320.59
92_V99_Q1.1310.59
60_V102_T1.1300.59
59_L142_R1.1270.59
6_R11_D1.1250.59
40_V152_V1.0880.56
116_W144_A1.0850.56
137_E159_Y1.0750.55
16_C63_D1.0710.55
51_S149_S1.0650.55
121_E125_K1.0550.54
8_E32_T1.0310.52
154_A157_Q1.0270.52
91_P128_W1.0210.51
142_R159_Y1.0150.51
20_K24_F1.0120.51
49_A149_S1.0050.50
7_Y18_A1.0000.50
10_D68_T0.9950.50
58_M113_L0.9930.49
16_C64_C0.9810.49
11_D102_T0.9800.49
42_L63_D0.9760.48
87_V96_Q0.9650.47
96_Q120_E0.9530.47
69_A73_M0.9520.47
113_L122_L0.9480.46
19_R63_D0.9410.46
96_Q134_E0.9390.46
71_R92_V0.9340.45
52_P148_D0.9190.44
130_H135_L0.9120.44
111_A133_L0.8990.43
43_N102_T0.8860.42
36_T60_V0.8800.41
149_S153_V0.8770.41
21_L106_F0.8710.41
91_P125_K0.8680.41
50_L59_L0.8630.40
137_E147_E0.8620.40
7_Y146_C0.8570.40
5_V11_D0.8550.40
4_H62_L0.8530.40
24_F125_K0.8530.40
27_A102_T0.8530.40
53_A101_N0.8470.39
5_V27_A0.8460.39
13_P52_P0.8400.39
86_L112_I0.8340.38
153_V157_Q0.8240.38
150_S161_D0.8190.37
10_D74_F0.8170.37
11_D27_A0.8160.37
46_A135_L0.8140.37
150_S153_V0.8110.37
157_Q161_D0.8090.37
137_E141_R0.8050.36
126_F129_G0.8020.36
107_A128_W0.8020.36
85_F97_P0.7960.36
150_S156_Q0.7820.35
98_F160_L0.7770.34
61_A69_A0.7730.34
138_E162_A0.7710.34
49_A101_N0.7560.33
114_G144_A0.7520.33
26_L125_K0.7500.33
103_V122_L0.7500.33
18_A43_N0.7480.33
107_A152_V0.7480.33
22_A27_A0.7450.32
7_Y11_D0.7430.32
41_V94_Y0.7420.32
85_F149_S0.7410.32
6_R36_T0.7260.31
23_R67_E0.7210.31
40_V148_D0.7190.31
39_G102_T0.7180.31
10_D72_A0.7180.31
3_L115_R0.7080.30
21_L107_A0.7080.30
5_V36_T0.7060.30
15_K106_F0.7050.30
42_L85_F0.7040.30
17_T75_E0.7010.30
40_V106_F0.6970.29
11_D82_A0.6960.29
111_A158_A0.6910.29
127_T139_P0.6900.29
87_V160_L0.6880.29
40_V98_F0.6840.29
64_C102_T0.6810.29
64_C156_Q0.6800.28
64_C69_A0.6800.28
18_A102_T0.6790.28
49_A82_A0.6780.28
88_A129_G0.6730.28
38_A77_D0.6710.28
123_L151_E0.6630.27
17_T128_W0.6610.27
79_E101_N0.6600.27
3_L128_W0.6570.27
21_L129_G0.6450.26
93_N152_V0.6450.26
41_V157_Q0.6380.26
7_Y62_L0.6310.26
59_L110_L0.6260.25
72_A101_N0.6260.25
50_L113_L0.6220.25
92_V139_P0.6210.25
44_P63_D0.6200.25
51_S152_V0.6150.25
76_I79_E0.6110.25
63_D153_V0.6090.25
50_L106_F0.6090.25
89_A123_L0.6050.24
150_S158_A0.6040.24
106_F109_A0.6030.24
134_E137_E0.6010.24
31_R91_P0.6000.24
6_R10_D0.6000.24
40_V159_Y0.5970.24
120_E130_H0.5950.24
63_D72_A0.5940.24
149_S156_Q0.5930.24
16_C44_P0.5910.24
133_L137_E0.5910.24
103_V129_G0.5880.23
82_A94_Y0.5880.23
5_V102_T0.5880.23
6_R23_R0.5860.23
142_R155_V0.5810.23
9_G40_V0.5800.23
70_G158_A0.5780.23
43_N60_V0.5750.23
6_R69_A0.5750.23
102_T146_C0.5710.23
135_L158_A0.5690.22
17_T42_L0.5660.22
64_C126_F0.5640.22
93_N146_C0.5620.22
52_P156_Q0.5540.22
146_C152_V0.5520.22
86_L123_L0.5510.22
25_D68_T0.5480.21
11_D60_V0.5460.21
97_P156_Q0.5460.21
20_K162_A0.5460.21
35_E48_R0.5440.21
42_L77_D0.5440.21
145_D155_V0.5440.21
154_A161_D0.5430.21
18_A67_E0.5410.21
98_F101_N0.5390.21
23_R135_L0.5360.21
6_R18_A0.5350.21
49_A85_F0.5350.21
89_A131_T0.5320.21
103_V133_L0.5320.21
53_A150_S0.5310.21
25_D41_V0.5290.21
49_A92_V0.5280.20
24_F109_A0.5270.20
7_Y16_C0.5260.20
3_L41_V0.5250.20
42_L59_L0.5220.20
38_A75_E0.5210.20
26_L103_V0.5190.20
8_E36_T0.5190.20
26_L35_E0.5150.20
113_L133_L0.5130.20
141_R145_D0.5080.20
13_P19_R0.5080.20
22_A35_E0.5070.19
9_G127_T0.5070.19
86_L108_G0.5010.19
116_W120_E0.5000.19
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  
3j16B 1 0.5879 24.6 0.959 Contact Map
1yrtA 1 0.5091 16.3 0.962 Contact Map
1mdaH 1 0.4364 9.5 0.966 Contact Map
1b6aA 1 0.3394 7.7 0.967 Contact Map
3zldB 1 0.1818 7 0.968 Contact Map
4jp6A 1 0.4121 5.7 0.969 Contact Map
4xglA 1 0.4121 5.7 0.969 Contact Map
1k32A 5 0.7394 5.3 0.97 Contact Map
2oizA 2 0.4545 5.3 0.97 Contact Map
3mbrX 1 0.3758 4.9 0.97 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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