GREMLIN Database
RNM5 - Ribonuclease M5
UniProt: P37547 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 186 (176)
Sequences: 750 (554)
Seq/√Len: 41.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
15_T28_E3.8421.00
17_R20_L3.7951.00
62_E66_K3.3391.00
147_L178_T3.1641.00
5_E76_K3.1311.00
80_L95_V3.0471.00
84_L102_S2.8381.00
15_T26_T2.7961.00
63_K67_T2.7931.00
42_I51_V2.6211.00
54_L80_L2.5611.00
92_G97_H2.5361.00
69_S77_H2.5211.00
129_A172_F2.5041.00
35_D38_V2.2821.00
27_I42_I2.2551.00
25_D49_R2.2321.00
84_L105_A2.1751.00
168_K171_D2.1320.99
125_D159_Q2.1240.99
68_I72_V2.0410.99
44_L48_T2.0280.99
144_L158_L1.9900.99
125_D169_K1.9870.99
81_P84_L1.9310.99
132_I155_G1.8740.99
59_F63_K1.8020.98
18_I24_A1.7930.98
43_R71_A1.7780.98
78_A107_L1.7650.98
34_I67_T1.7350.98
18_I103_I1.6710.97
21_A100_V1.6690.97
39_I71_A1.6470.97
39_I43_R1.6190.96
21_A104_R1.5760.96
18_I54_L1.5720.96
38_V41_Q1.5550.95
111_H171_D1.4880.94
130_G134_G1.4820.94
105_A108_E1.4680.94
134_G137_A1.4330.93
139_C143_R1.4160.92
46_Q68_I1.4030.92
30_N33_A1.3800.91
22_V107_L1.3550.90
34_I68_I1.3400.90
169_K173_M1.3120.89
145_G150_I1.2940.88
119_S163_Q1.2870.88
86_K93_I1.2830.88
69_S113_E1.2700.87
138_K142_E1.2630.87
43_R47_K1.2310.86
137_A140_R1.2150.85
136_A139_C1.2110.85
18_I21_A1.1890.84
53_I75_C1.1730.83
155_G165_F1.1720.83
8_V42_I1.1590.82
46_Q74_G1.1410.81
100_V104_R1.1400.81
80_L132_I1.1400.81
78_A106_C1.1370.81
46_Q72_V1.1360.81
38_V42_I1.1350.81
129_A140_R1.1330.80
80_L85_A1.1320.80
5_E50_G1.1260.80
159_Q163_Q1.1120.79
13_D16_A1.1090.79
51_V75_C1.1000.78
174_S178_T1.0790.77
123_A159_Q1.0620.76
82_K93_I1.0590.76
121_I162_L1.0590.76
6_I164_M1.0530.75
136_A140_R1.0470.75
80_L102_S1.0420.75
83_H146_D1.0200.73
125_D172_F1.0160.73
17_R100_V1.0110.72
82_K86_K1.0110.72
59_F91_R0.9950.71
66_K70_E0.9940.71
126_L155_G0.9940.71
130_G140_R0.9850.70
68_I75_C0.9810.70
87_P91_R0.9770.70
27_I38_V0.9620.68
36_D40_D0.9610.68
143_R147_L0.9600.68
34_I38_V0.9510.68
21_A24_A0.9490.67
53_I68_I0.9370.66
64_I150_I0.9360.66
46_Q51_V0.9350.66
13_D97_H0.9300.66
174_S177_D0.9290.66
87_P93_I0.9190.65
120_D169_K0.9190.65
125_D129_A0.9170.65
107_L112_E0.9100.64
7_I54_L0.9100.64
42_I72_V0.9100.64
133_G137_A0.8910.62
38_V45_A0.8900.62
78_A110_V0.8870.62
101_E104_R0.8850.62
144_L179_V0.8810.62
143_R179_V0.8780.61
153_T158_L0.8710.61
40_D43_R0.8700.61
151_G161_R0.8500.59
3_I76_K0.8480.59
172_F175_A0.8320.57
51_V72_V0.8310.57
34_I64_I0.8310.57
80_L126_L0.8260.57
46_Q166_Q0.8190.56
91_R97_H0.8070.55
16_A20_L0.8060.55
134_G138_K0.8010.54
126_L156_K0.8010.54
13_D96_E0.7980.54
39_I72_V0.7950.54
72_V75_C0.7890.53
36_D71_A0.7880.53
138_K152_Y0.7820.52
34_I42_I0.7780.52
44_L47_K0.7770.52
46_Q50_G0.7720.52
48_T153_T0.7690.51
27_I45_A0.7610.50
105_A109_N0.7530.50
26_T32_S0.7520.50
171_D174_S0.7510.50
5_E103_I0.7460.49
147_L172_F0.7410.49
60_P75_C0.7390.48
21_A103_I0.7370.48
83_H95_V0.7350.48
30_N41_Q0.7300.48
126_L159_Q0.7290.47
124_E128_H0.7230.47
3_I50_G0.7070.45
39_I82_K0.7050.45
60_P92_G0.7040.45
78_A103_I0.7020.45
126_L132_I0.7000.45
169_K172_F0.6980.45
145_G153_T0.6960.44
48_T171_D0.6940.44
20_L100_V0.6940.44
105_A124_E0.6930.44
45_A50_G0.6930.44
82_K105_A0.6900.44
18_I26_T0.6880.44
151_G154_N0.6860.44
81_P86_K0.6800.43
44_L51_V0.6760.43
101_E139_C0.6740.42
103_I175_A0.6740.42
87_P97_H0.6690.42
11_G14_D0.6680.42
10_E14_D0.6680.42
119_S169_K0.6660.42
32_S67_T0.6650.42
25_D161_R0.6620.41
122_S125_D0.6610.41
131_L148_L0.6590.41
74_G115_E0.6590.41
60_P82_K0.6560.41
54_L134_G0.6510.40
18_I22_V0.6500.40
7_I22_V0.6470.40
145_G151_G0.6450.40
3_I165_F0.6430.40
138_K162_L0.6420.40
109_N135_P0.6420.40
127_I137_A0.6420.40
129_A176_L0.6400.39
6_I45_A0.6360.39
136_A143_R0.6350.39
53_I114_M0.6300.38
139_C142_E0.6270.38
84_L149_K0.6250.38
142_E152_Y0.6190.37
127_I132_I0.6190.37
45_A51_V0.6180.37
123_A126_L0.6140.37
53_I113_E0.6050.36
152_Y157_Q0.6040.36
45_A107_L0.5970.36
170_S174_S0.5970.36
34_I37_H0.5920.35
155_G158_L0.5910.35
157_Q161_R0.5890.35
30_N60_P0.5880.35
145_G158_L0.5860.35
62_E161_R0.5850.35
25_D164_M0.5830.34
99_S102_S0.5830.34
121_I172_F0.5820.34
110_V113_E0.5800.34
4_K125_D0.5790.34
108_E124_E0.5770.34
57_P85_A0.5760.34
16_A90_K0.5720.33
27_I41_Q0.5690.33
122_S163_Q0.5690.33
12_R166_Q0.5670.33
145_G172_F0.5650.33
86_K91_R0.5640.33
140_R155_G0.5640.33
17_R172_F0.5630.33
28_E33_A0.5580.32
18_I28_E0.5550.32
154_N161_R0.5540.32
89_N93_I0.5530.32
42_I53_I0.5530.32
82_K142_E0.5520.32
158_L177_D0.5520.32
121_I163_Q0.5500.32
154_N167_I0.5490.32
49_R161_R0.5490.32
5_E49_R0.5480.31
49_R79_F0.5470.31
123_A134_G0.5460.31
20_L107_L0.5460.31
19_K25_D0.5450.31
22_V104_R0.5440.31
135_P177_D0.5440.31
125_D128_H0.5440.31
12_R167_I0.5420.31
13_D93_I0.5380.31
173_M177_D0.5370.31
114_M177_D0.5360.31
84_L142_E0.5340.30
117_Q174_S0.5340.30
86_K97_H0.5310.30
19_K150_I0.5310.30
15_T18_I0.5300.30
145_G148_L0.5300.30
45_A78_A0.5280.30
36_D80_L0.5280.30
9_V14_D0.5270.30
49_R115_E0.5230.29
17_R24_A0.5220.29
4_K140_R0.5200.29
38_V107_L0.5190.29
16_A63_K0.5180.29
32_S97_H0.5160.29
51_V74_G0.5150.29
32_S63_K0.5120.29
53_I72_V0.5100.28
147_L175_A0.5080.28
128_H135_P0.5060.28
39_I67_T0.5060.28
19_K24_A0.5050.28
42_I45_A0.5040.28
104_R108_E0.5030.28
63_K66_K0.5030.28
51_V164_M0.5000.28
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  
2fcjA 2 0.6237 100 0.578 Contact Map
1t6t1 2 0.5108 99.5 0.772 Contact Map
2au3A 1 0.8495 99.1 0.814 Contact Map
4edgA 1 0.8656 98.4 0.856 Contact Map
1dd9A 1 0.8602 97.7 0.878 Contact Map
1nuiA 1 0.543 96.1 0.902 Contact Map
1q57A 3 0.9355 94 0.914 Contact Map
2q2eA 2 0.7957 89.9 0.924 Contact Map
1mw9X 1 0.9194 89.6 0.924 Contact Map
1d3yA 2 0.7849 88.3 0.926 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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