GREMLIN Database
Minor_capsid_2 - Minor capsid protein
PFAM: PF11114 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 114 (109)
Sequences: 1254 (1055)
Seq/√Len: 101.0
META: 0.826

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
31_L49_G4.0671.00
66_R70_Y3.3081.00
87_N90_A3.2851.00
91_G97_R3.1411.00
37_Y102_H2.7411.00
35_N46_R2.3391.00
30_V34_M2.3051.00
37_Y101_D2.1321.00
33_D106_W2.1251.00
40_F43_G2.0731.00
102_H105_D1.9991.00
98_A106_W1.9901.00
40_F46_R1.9301.00
29_Q32_K1.6991.00
67_Y71_G1.6921.00
34_M95_F1.6781.00
23_Q27_A1.6581.00
48_S62_T1.6191.00
69_Y93_R1.5801.00
69_Y95_F1.5521.00
104_D107_L1.5341.00
25_A29_Q1.5321.00
95_F99_K1.5291.00
104_D108_R1.5121.00
76_K79_T1.4921.00
38_V46_R1.4871.00
70_Y93_R1.4841.00
29_Q33_D1.4371.00
35_N60_Y1.4321.00
86_T90_A1.4231.00
36_P89_G1.3951.00
68_Q82_F1.3911.00
73_K76_K1.3660.99
25_A109_V1.3610.99
45_L68_Q1.3550.99
85_Y90_A1.3460.99
27_A55_G1.3400.99
46_R90_A1.2870.99
38_V60_Y1.2600.99
80_L83_S1.1710.98
34_M98_A1.1420.98
45_L65_A1.1350.98
29_Q109_V1.1200.98
46_R87_N1.0820.97
98_A102_H1.0810.97
27_A56_G1.0600.97
33_D98_A1.0570.97
82_F85_Y1.0420.96
16_K19_L1.0370.96
77_N80_L1.0300.96
84_K87_N1.0120.96
103_G107_L1.0050.96
6_D10_I0.9960.95
8_S12_K0.9850.95
10_I13_K0.9790.95
102_H106_W0.9640.95
26_L30_V0.9640.95
74_V77_N0.9600.94
9_G12_K0.9500.94
83_S86_T0.9480.94
68_Q71_G0.9240.93
108_R111_K0.9140.93
10_I14_L0.9140.93
99_K103_G0.9110.93
27_A51_V0.9110.93
33_D102_H0.9020.92
84_K90_A0.8910.92
74_V78_G0.8910.92
11_K16_K0.8900.92
71_G92_P0.8710.91
26_L106_W0.8690.91
12_K16_K0.8640.91
85_Y89_G0.8470.90
35_N38_V0.8460.90
99_K106_W0.8400.89
74_V79_T0.8350.89
73_K77_N0.8260.89
97_R101_D0.8220.88
82_F90_A0.8190.88
44_T47_N0.8120.88
41_D83_S0.8100.88
93_R96_E0.8080.88
76_K82_F0.8070.88
15_S18_A0.8050.87
48_S60_Y0.8040.87
31_L48_S0.8020.87
6_D9_G0.7770.85
39_P71_G0.7720.85
12_K15_S0.7680.85
11_K14_L0.7590.84
83_S87_N0.7560.84
39_P68_Q0.7550.84
105_D108_R0.7440.83
45_L64_Y0.7430.83
28_N32_K0.7370.82
76_K80_L0.7130.80
22_A26_L0.7090.80
46_R60_Y0.7050.79
82_F87_N0.7020.79
16_K20_G0.7020.79
75_P79_T0.6990.79
34_M60_Y0.6970.79
53_S56_G0.6930.78
67_Y80_L0.6850.77
13_K17_A0.6830.77
27_A54_D0.6810.77
7_L10_I0.6710.76
25_A28_N0.6650.75
14_L17_A0.6570.75
69_Y96_E0.6530.74
71_G82_F0.6410.73
23_Q110_A0.6390.72
71_G76_K0.6380.72
40_F87_N0.6330.72
8_S15_S0.6320.72
23_Q26_L0.6300.71
90_A97_R0.6290.71
25_A33_D0.6260.71
80_L84_K0.6190.70
31_L60_Y0.6140.69
8_S11_K0.6140.69
38_V49_G0.6080.69
96_E99_K0.6060.68
46_R89_G0.6050.68
27_A31_L0.6040.68
21_K25_A0.6010.68
72_K78_G0.5990.68
7_L13_K0.5960.67
99_K102_H0.5940.67
11_K15_S0.5930.67
77_N82_F0.5890.66
73_K79_T0.5850.66
4_K7_L0.5840.66
52_S61_N0.5820.65
73_K78_G0.5810.65
67_Y72_K0.5780.65
13_K18_A0.5780.65
45_L48_S0.5750.64
3_V6_D0.5740.64
24_K28_N0.5730.64
75_P78_G0.5700.64
18_A22_A0.5680.63
3_V11_K0.5680.63
10_I15_S0.5640.63
86_T89_G0.5620.63
28_N31_L0.5610.63
15_S22_A0.5500.61
17_A20_G0.5460.60
26_L33_D0.5440.60
80_L92_P0.5440.60
67_Y75_P0.5420.60
52_S56_G0.5370.59
10_I22_A0.5340.59
21_K24_K0.5330.59
9_G13_K0.5310.58
14_L19_L0.5290.58
50_T53_S0.5260.58
49_G58_I0.5220.57
107_L111_K0.5220.57
71_G75_P0.5200.57
25_A32_K0.5200.57
52_S55_G0.5200.57
7_L12_K0.5050.55
44_T48_S0.5000.54
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  
3j39U 1 0.7632 3.9 0.931 Contact Map
1o5hA 2 0.4211 3.1 0.934 Contact Map
3kcqA 2 0.5263 3 0.935 Contact Map
1slqA 6 0.3158 2.6 0.937 Contact Map
2iqiA 1 0.386 2.6 0.937 Contact Map
4ujpO 1 0.386 1.7 0.943 Contact Map
3gqcA 3 0.2544 1.7 0.943 Contact Map
3uebA 2 0.2895 1.7 0.943 Contact Map
1wi5A 1 0.3772 1.7 0.943 Contact Map
2vbkA 3 0.5614 1.7 0.943 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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