GREMLIN Database
RNPA - Ribonuclease P protein component
UniProt: P25814 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 116 (106)
Sequences: 2120 (1556)
Seq/√Len: 151.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
42_R79_D3.8171.00
66_Q69_L2.8671.00
45_L64_I2.8431.00
92_T95_E2.8201.00
25_N99_S2.6791.00
43_V68_F2.5031.00
59_R63_L2.4551.00
58_N61_K2.4491.00
66_Q70_E2.2031.00
35_Q38_N2.1321.00
71_E101_Q2.0721.00
82_I100_L2.0201.00
54_A58_N2.0121.00
13_F44_G1.9181.00
27_Q91_L1.8371.00
10_N14_Q1.8311.00
61_K65_R1.7921.00
25_N102_H1.7521.00
47_V60_I1.6781.00
7_L16_V1.6681.00
35_Q79_D1.6041.00
5_N40_E1.5991.00
67_A96_T1.5851.00
27_Q99_S1.5651.00
70_E97_K1.5491.00
5_N72_K1.5451.00
63_L96_T1.5391.00
97_K101_Q1.4901.00
64_I82_I1.4601.00
34_D78_K1.4461.00
71_E97_K1.3861.00
23_V32_T1.3731.00
15_K33_L1.2851.00
17_F46_S1.2831.00
94_E97_K1.2571.00
71_E74_R1.2381.00
24_A85_R1.2371.00
32_T78_K1.2031.00
91_L99_S1.1661.00
74_R101_Q1.1351.00
24_A29_V1.1210.99
14_Q18_K1.1020.99
32_T107_S1.0770.99
63_L66_Q1.0270.99
35_Q40_E0.9970.99
56_M60_I0.9930.99
67_A100_L0.9760.99
12_D15_K0.9550.98
67_A93_Y0.9490.98
63_L67_A0.9450.98
22_S29_V0.9440.98
43_V82_I0.9430.98
88_A96_T0.9400.98
52_G56_M0.9280.98
54_A61_K0.9210.98
98_K102_H0.9150.98
16_V33_L0.9110.98
51_I86_K0.9100.98
63_L93_Y0.9010.98
93_Y97_K0.8930.97
17_F83_I0.8900.97
46_S83_I0.8810.97
27_Q87_P0.8780.97
28_F100_L0.8740.97
22_S85_R0.8700.97
80_Y109_L0.8580.97
9_K12_D0.8460.96
20_G33_L0.8400.96
60_I88_A0.8400.96
25_N103_L0.8210.96
75_L104_F0.8180.96
30_L80_Y0.8170.96
3_K8_K0.8140.96
23_V106_K0.8140.96
28_F64_I0.7980.95
78_K109_L0.7900.95
31_Y83_I0.7850.95
47_V61_K0.7820.95
84_A88_A0.7790.94
21_T32_T0.7770.94
68_F72_K0.7730.94
56_M89_S0.7710.94
16_V81_I0.7680.94
74_R105_R0.7670.94
17_F50_K0.7600.94
31_Y85_R0.7550.93
30_L103_L0.7530.93
100_L104_F0.7430.93
102_H106_K0.7390.93
41_L77_E0.7380.93
14_Q46_S0.7320.92
67_A97_K0.7320.92
29_V85_R0.7240.92
86_K89_S0.7190.92
25_N29_V0.7190.92
45_L68_F0.7180.92
5_N41_L0.7170.92
48_S51_I0.7140.91
53_N56_M0.7140.91
91_L96_T0.7130.91
47_V84_A0.7000.91
45_L65_R0.6990.91
43_V80_Y0.6980.90
41_L72_K0.6870.90
13_F65_R0.6830.90
4_R40_E0.6830.90
95_E98_K0.6770.89
29_V51_I0.6750.89
76_K109_L0.6680.88
63_L92_T0.6640.88
60_I89_S0.6630.88
46_S52_G0.6570.88
19_H33_L0.6570.88
65_R100_L0.6570.88
74_R108_S0.6550.88
17_F31_Y0.6540.87
58_N65_R0.6500.87
7_L69_L0.6500.87
26_R95_E0.6360.86
3_K6_R0.6350.86
59_R66_Q0.6310.86
12_D79_D0.6300.85
46_S85_R0.6260.85
60_I84_A0.6150.84
102_H105_R0.6100.84
15_K19_H0.6040.83
51_I56_M0.5970.82
67_A104_F0.5940.82
38_N108_S0.5920.82
91_L95_E0.5910.82
77_E90_Q0.5830.81
30_L107_S0.5800.80
15_K38_N0.5690.79
68_F82_I0.5690.79
87_P91_L0.5640.79
104_F109_L0.5580.78
49_K53_N0.5570.78
67_A71_E0.5550.77
30_L82_I0.5520.77
52_G84_A0.5510.77
13_F43_V0.5440.76
51_I83_I0.5440.76
17_F85_R0.5420.76
4_R43_V0.5370.75
28_F99_S0.5360.75
76_K108_S0.5360.75
14_Q44_G0.5330.75
24_A99_S0.5330.75
14_Q81_I0.5260.74
81_I93_Y0.5200.73
16_V46_S0.5190.73
99_S102_H0.5190.73
23_V103_L0.5180.73
6_R82_I0.5140.72
28_F67_A0.5110.71
6_R43_V0.5080.71
34_D37_E0.5020.70
26_R102_H0.5010.70
51_I89_S0.5000.70
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  
4jg4A 1 0.9655 100 0.12 Contact Map
1d6tA 1 0.9914 100 0.136 Contact Map
2ljpA 1 0.9741 100 0.169 Contact Map
1nz0A 4 0.9138 100 0.17 Contact Map
4oxpA 1 0.8793 99 0.657 Contact Map
2bx2L 3 0.7845 69.1 0.882 Contact Map
2j5aA 1 0.3966 14.7 0.92 Contact Map
5aj3F 1 0.3534 12.3 0.923 Contact Map
1cqmA 1 0.3621 11.4 0.924 Contact Map
3uq8A 1 0.4655 8.2 0.929 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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