GREMLIN Database
RPAP3_C - Potential Monad-binding region of RPAP3
PFAM: PF13877 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 89 (87)
Sequences: 863 (680)
Seq/√Len: 72.9
META: 0.333

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
34_L67_I3.8571.00
8_F12_W3.6641.00
7_E10_R3.5341.00
12_W49_E3.5201.00
79_L82_M3.1791.00
35_P76_R2.6391.00
7_E11_D2.3291.00
3_K7_E2.2911.00
20_P24_A2.2541.00
71_L76_R1.9711.00
35_P73_K1.9031.00
48_G84_L1.6931.00
38_F41_S1.6911.00
30_P33_T1.5370.99
85_S89_K1.4860.99
54_L67_I1.4220.99
78_D81_L1.4170.99
38_F44_P1.4010.98
9_E43_E1.3550.98
26_L34_L1.3310.98
33_T89_K1.2860.97
41_S79_L1.2220.96
33_T36_K1.2150.96
6_Y41_S1.1670.95
5_A80_A1.1270.94
29_I78_D1.1150.94
72_S77_F1.0910.93
64_D86_K1.0750.93
28_Q61_K1.0600.92
9_E71_L1.0590.92
47_L57_H1.0290.91
55_A64_D1.0290.91
6_Y79_L1.0250.91
18_S85_S1.0060.90
31_P70_A1.0030.90
30_P35_P0.9840.89
46_L60_E0.9830.89
69_E86_K0.9790.89
41_S74_V0.9750.89
4_T20_P0.9510.87
5_A8_F0.9510.87
48_G71_L0.9420.87
52_Q73_K0.9420.87
10_R83_F0.9410.87
31_P40_N0.9350.86
18_S23_Y0.9300.86
8_F74_V0.9230.86
86_K89_K0.9210.86
48_G88_E0.9190.85
5_A41_S0.9150.85
31_P76_R0.9140.85
25_Y28_Q0.9130.85
44_P82_M0.9130.85
41_S84_L0.8870.83
9_E78_D0.8860.83
31_P35_P0.8820.83
29_I51_L0.8740.82
42_L80_A0.8560.81
29_I89_K0.8520.81
66_E87_S0.8480.80
21_D24_A0.8190.78
83_F88_E0.8120.78
50_I54_L0.8100.77
69_E72_S0.8060.77
38_F74_V0.8050.77
14_R83_F0.8040.77
36_K73_K0.8020.77
32_E87_S0.8000.76
13_R49_E0.8000.76
31_P42_L0.7890.75
46_L59_I0.7870.75
14_R46_L0.7810.75
5_A10_R0.7810.75
15_L84_L0.7780.74
65_L69_E0.7780.74
8_F13_R0.7670.73
23_Y32_E0.7600.73
52_Q87_S0.7590.73
43_E74_V0.7570.72
3_K56_D0.7410.71
20_P25_Y0.7390.71
66_E69_E0.7260.69
61_K64_D0.7240.69
58_L65_L0.7140.68
36_K52_Q0.7040.67
22_R25_Y0.6960.66
38_F42_L0.6880.65
3_K59_I0.6870.65
81_L84_L0.6800.64
35_P70_A0.6720.63
19_D25_Y0.6670.63
12_W22_R0.6600.62
9_E79_L0.6590.62
18_S22_R0.6570.62
5_A9_E0.6520.61
74_V80_A0.6490.61
31_P74_V0.6460.60
61_K65_L0.6450.60
42_L76_R0.6440.60
15_L22_R0.6410.60
20_P32_E0.6350.59
32_E66_E0.6290.58
28_Q56_D0.6190.57
56_D72_S0.6160.57
6_Y11_D0.6120.56
47_L80_A0.6100.56
24_A65_L0.6100.56
26_L70_A0.5940.54
71_L77_F0.5870.53
74_V82_M0.5760.52
2_P38_F0.5690.51
36_K62_D0.5680.51
29_I37_L0.5660.50
32_E69_E0.5620.50
22_R79_L0.5610.50
6_Y9_E0.5480.48
51_L60_E0.5440.48
43_E72_S0.5330.46
37_L52_Q0.5300.46
42_L74_V0.5290.46
17_K65_L0.5210.45
2_P71_L0.5200.45
4_T14_R0.5200.45
19_D23_Y0.5170.44
31_P34_L0.5150.44
29_I33_T0.5140.44
24_A64_D0.5080.43
6_Y44_P0.5000.42
14_R38_F0.5000.42
29_I39_K0.5000.42
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  
1ylmA 2 0.7416 11 0.873 Contact Map
2m9vA 1 0.8539 10.4 0.874 Contact Map
2inbA 2 0.764 8.5 0.879 Contact Map
2zndA 2 0.8876 7.2 0.883 Contact Map
4uslA 2 0.9213 5.8 0.888 Contact Map
4qoxA 1 0.7978 5.4 0.889 Contact Map
3d3qA 1 0.9213 5 0.891 Contact Map
1xi4A 8 1 5 0.891 Contact Map
3hjlA 1 0.9101 5 0.891 Contact Map
3qq6A 2 0.7528 4.9 0.892 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.

Page generated in 0.0045 seconds.