GREMLIN Database
RPPH - RNA pyrophosphohydrolase
UniProt: P0A776 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13091
Length: 176 (150)
Sequences: 1114 (615)
Seq/√Len: 50.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
66_R105_V4.2991.00
70_S98_K3.9111.00
64_D110_E3.6621.00
72_R150_E3.6221.00
45_S48_Q3.2421.00
26_R122_D2.8391.00
7_Y78_K2.8261.00
67_I102_L2.7721.00
47_E70_S2.6551.00
40_I46_A2.6201.00
142_D145_R2.5541.00
76_R96_K2.5031.00
66_R103_Q2.4911.00
15_I60_L2.3181.00
55_F61_S2.2661.00
21_Q128_S2.2591.00
74_W98_K2.1971.00
47_E67_I2.1091.00
14_V35_F2.0471.00
14_V129_Y2.0331.00
17_N21_Q2.0191.00
106_S110_E2.0061.00
129_Y148_M1.9991.00
71_T75_L1.9570.99
54_L65_V1.8540.99
6_G93_I1.7740.99
46_A74_W1.7700.99
147_V151_F1.6790.98
130_W152_A1.6500.98
127_V131_Y1.6480.98
23_M58_V1.6390.98
10_N143_V1.6390.98
79_L90_P1.5460.97
50_M102_L1.5340.97
47_E102_L1.5300.97
26_R123_G1.5010.97
47_E51_Y1.4810.96
20_G103_Q1.4810.96
128_S131_Y1.4350.96
74_W96_K1.3590.94
16_C20_G1.3110.93
71_T151_F1.3050.93
58_V61_S1.2570.91
78_K93_I1.2530.91
104_L111_I1.2150.90
60_L64_D1.2110.90
40_I49_A1.2060.89
23_M113_M1.1950.89
71_T150_E1.1940.89
23_M88_T1.1780.88
130_W133_V1.1730.88
16_C101_L1.1720.88
51_Y65_V1.1610.88
32_S50_M1.1590.88
5_D93_I1.1540.87
24_W127_V1.1420.87
26_R31_H1.1240.86
24_W132_P1.1110.85
12_G99_W1.0960.84
69_A151_F1.0930.84
143_V147_V1.0920.84
13_I50_M1.0390.81
113_M116_S1.0320.81
125_R135_Q1.0270.80
99_W137_V1.0220.80
68_L153_S1.0200.80
10_N25_A1.0170.80
33_W36_P1.0080.79
16_C129_Y1.0050.79
5_D84_V0.9970.78
112_N115_T0.9720.77
79_L85_R0.9580.75
128_S133_V0.9530.75
24_W125_R0.9480.75
59_G113_M0.9450.74
61_S64_D0.9140.72
75_L143_V0.9100.72
107_G110_E0.9080.71
23_M119_P0.8810.69
15_I65_V0.8700.68
10_N97_Q0.8680.68
75_L147_V0.8590.67
79_L89_K0.8570.67
131_Y145_R0.8550.67
127_V135_Q0.8500.66
69_A154_V0.8500.66
55_F115_T0.8460.66
104_L124_W0.8380.65
79_L83_L0.8320.65
51_Y102_L0.8210.64
16_C148_M0.8190.63
14_V132_P0.8080.62
88_T91_V0.7990.62
36_P144_Y0.7980.61
108_D111_I0.7920.61
131_Y135_Q0.7910.61
35_F132_P0.7880.60
15_I58_V0.7840.60
5_D85_R0.7830.60
18_R107_G0.7790.60
55_F116_S0.7740.59
11_V143_V0.7730.59
10_N100_F0.7730.59
113_M152_A0.7630.58
58_V154_V0.7570.57
46_A100_F0.7530.57
105_V108_D0.7530.57
22_V35_F0.7520.57
51_Y55_F0.7500.57
48_Q125_R0.7490.57
9_P96_K0.7490.57
73_N98_K0.7470.56
68_L101_L0.7430.56
104_L110_E0.7420.56
8_R11_V0.7380.55
80_P97_Q0.7320.55
111_I124_W0.7310.55
81_K84_V0.7300.55
129_Y132_P0.7300.55
134_R149_K0.7240.54
145_R149_K0.7190.54
122_D141_R0.7160.53
35_F136_V0.6990.51
85_R132_P0.6940.51
84_V89_K0.6910.51
99_W124_W0.6860.50
10_N35_F0.6800.50
49_A143_V0.6760.49
79_L87_D0.6740.49
29_G32_S0.6710.49
16_C68_L0.6700.48
73_N96_K0.6690.48
13_I23_M0.6640.48
146_R150_E0.6590.47
87_D91_V0.6560.47
80_P139_F0.6560.47
123_G142_D0.6560.47
101_L129_Y0.6550.47
22_V132_P0.6520.47
129_Y133_V0.6490.46
65_V105_V0.6460.46
28_F131_Y0.6450.46
42_P116_S0.6450.46
6_G84_V0.6430.46
87_D125_R0.6430.46
6_G85_R0.6390.45
48_Q118_T0.6370.45
12_G137_V0.6310.44
71_T98_K0.6310.44
33_W144_Y0.6310.44
128_S149_K0.6290.44
128_S146_R0.6290.44
36_P99_W0.6270.44
75_L150_E0.6250.44
101_L155_V0.6210.43
64_D106_S0.6170.43
16_C155_V0.6150.43
80_P151_F0.6100.42
74_W97_Q0.6060.42
30_Q142_D0.6050.42
51_Y67_I0.6040.42
135_Q155_V0.6020.42
25_A111_I0.6010.41
19_Q146_R0.6010.41
80_P99_W0.5990.41
128_S135_Q0.5980.41
99_W126_W0.5950.41
64_D104_L0.5910.40
78_K111_I0.5890.40
19_Q141_R0.5890.40
50_M60_L0.5880.40
23_M86_W0.5850.40
55_F60_L0.5840.40
28_F119_P0.5810.39
60_L65_V0.5800.39
119_P123_G0.5790.39
70_S74_W0.5760.39
65_V102_L0.5740.39
11_V74_W0.5740.39
138_S155_V0.5730.39
108_D124_W0.5670.38
46_A107_G0.5660.38
133_V148_M0.5570.37
19_Q107_G0.5570.37
99_W144_Y0.5570.37
20_G112_N0.5560.37
135_Q138_S0.5550.37
27_R34_Q0.5540.37
128_S138_S0.5540.37
30_Q122_D0.5530.37
15_I23_M0.5520.37
61_S67_I0.5510.37
16_C134_R0.5500.36
71_T96_K0.5470.36
25_A124_W0.5460.36
54_L80_P0.5440.36
111_I155_V0.5420.36
36_P139_F0.5420.36
11_V49_A0.5380.35
84_V92_C0.5360.35
35_F147_V0.5280.34
69_A101_L0.5270.34
82_R85_R0.5250.34
32_S115_T0.5230.34
50_M100_F0.5230.34
99_W139_F0.5200.34
46_A98_K0.5200.34
35_F138_S0.5190.34
32_S40_I0.5180.33
148_M155_V0.5170.33
108_D114_Q0.5170.33
91_V105_V0.5160.33
55_F58_V0.5130.33
134_R138_S0.5110.33
86_W111_I0.5100.33
142_D146_R0.5070.32
78_K92_C0.5060.32
113_M140_K0.5050.32
136_V141_R0.5020.32
17_N72_R0.5020.32
12_G36_P0.5020.32
73_N146_R0.5020.32
65_V136_V0.5020.32
42_P55_F0.5010.32
30_Q83_L0.5000.32
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  
4s2xA 1 0.892 100 0.584 Contact Map
1f3yA 1 0.8693 100 0.595 Contact Map
4ickA 1 0.7841 99.8 0.713 Contact Map
3fcmA 2 0.8068 99.8 0.717 Contact Map
2qjtB 2 0.8011 99.8 0.72 Contact Map
2o1cA 1 0.8011 99.8 0.725 Contact Map
4mpoA 4 0.7955 99.8 0.726 Contact Map
3f6aA 2 0.8125 99.7 0.728 Contact Map
3grnA 2 0.7557 99.7 0.728 Contact Map
3smdA 2 0.6875 99.7 0.729 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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