GREMLIN Database
Minor_capsid_1 - Minor capsid protein
PFAM: PF10665 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 105 (104)
Sequences: 516 (415)
Seq/√Len: 40.7
META: 0.715

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
18_D22_K3.1221.00
75_K82_E2.8141.00
87_K104_E2.7191.00
60_D100_H2.7101.00
13_E26_A2.6561.00
9_V31_I2.5411.00
9_V57_L2.4821.00
60_D99_H2.3821.00
45_T50_Q2.3621.00
9_V34_V2.2161.00
13_E74_S2.1380.99
7_H92_Y2.0800.99
6_I92_Y2.0700.99
77_V82_E1.8980.99
12_K77_V1.8700.98
59_V70_F1.7930.98
91_L100_H1.7570.98
16_G23_P1.7040.97
31_I59_V1.6440.96
14_Y73_G1.6380.96
5_L63_N1.6230.96
60_D63_N1.5780.95
66_P70_F1.5770.95
90_P101_Y1.5100.94
12_K75_K1.5060.94
63_N100_H1.4950.94
59_V64_S1.4890.94
90_P98_L1.4800.93
16_G24_T1.4480.93
60_D64_S1.4400.92
9_V36_F1.3830.91
8_S32_K1.3800.91
58_F102_E1.2920.88
14_Y74_S1.2760.87
72_E81_K1.2660.86
57_L103_V1.2330.85
11_Y74_S1.2260.85
15_T23_P1.2020.83
8_S30_T1.1970.83
70_F85_V1.1390.80
19_D22_K1.1170.79
6_I35_R1.1050.78
38_P79_D1.0560.75
5_L60_D1.0540.74
7_H79_D1.0460.74
7_H35_R1.0320.73
59_V101_Y1.0300.73
71_K74_S1.0300.73
32_K95_S1.0210.72
56_V104_E1.0190.72
64_S100_H1.0100.71
34_V64_S1.0100.71
2_K33_N0.9870.69
15_T22_K0.9850.69
97_K103_V0.9830.69
19_D48_G0.9800.69
89_I93_P0.9660.68
40_T53_A0.9590.67
85_V88_V0.9580.67
7_H78_F0.9550.67
63_N99_H0.9520.67
4_L37_D0.9520.67
53_A104_E0.9400.66
7_H38_P0.9390.66
44_G49_E0.9120.63
38_P102_E0.8910.61
25_Y28_P0.8910.61
48_G53_A0.8790.60
12_K84_T0.8670.59
85_V103_V0.8270.56
25_Y30_T0.8260.56
67_L70_F0.8120.54
31_I57_L0.8110.54
4_L35_R0.8080.54
67_L76_I0.8060.54
44_G50_Q0.7970.53
18_D24_T0.7870.52
9_V78_F0.7860.52
59_V103_V0.7810.51
12_K29_V0.7790.51
92_Y95_S0.7790.51
78_F92_Y0.7740.51
34_V60_D0.7720.51
9_V79_D0.7670.50
48_G51_I0.7660.50
10_T13_E0.7570.49
61_A64_S0.7540.49
24_T68_V0.7410.48
56_V87_K0.7150.45
30_T77_V0.7060.45
27_E80_G0.7050.44
5_L58_F0.7040.44
40_T51_I0.7000.44
18_D21_G0.6900.43
5_L34_V0.6810.42
53_A86_T0.6730.42
9_V59_V0.6720.41
70_F73_G0.6670.41
47_N52_V0.6630.41
55_A89_I0.6620.41
85_V89_I0.6540.40
26_A74_S0.6510.40
13_E83_Y0.6500.39
73_G84_T0.6490.39
35_R92_Y0.6470.39
32_K97_K0.6460.39
89_I104_E0.6340.38
39_S104_E0.6300.38
5_L35_R0.6260.37
5_L99_H0.6220.37
29_V45_T0.6220.37
9_V64_S0.6130.36
93_P98_L0.6120.36
77_V80_G0.6100.36
1_P63_N0.6080.36
37_D79_D0.5990.35
55_A83_Y0.5990.35
25_Y74_S0.5970.35
12_K28_P0.5960.35
52_V56_V0.5900.34
58_F78_F0.5880.34
69_D90_P0.5880.34
39_S89_I0.5840.34
20_W83_Y0.5760.33
12_K33_N0.5740.33
59_V63_N0.5730.33
25_Y79_D0.5720.33
13_E36_F0.5720.33
43_S52_V0.5680.32
42_Y53_A0.5650.32
23_P27_E0.5650.32
7_H94_D0.5630.32
47_N50_Q0.5590.32
56_V102_E0.5570.32
12_K103_V0.5510.31
71_K88_V0.5490.31
18_D23_P0.5430.30
49_E73_G0.5390.30
62_K99_H0.5390.30
41_K51_I0.5360.30
36_F55_A0.5280.29
35_R88_V0.5280.29
20_W94_D0.5220.29
29_V74_S0.5210.29
8_S101_Y0.5200.29
56_V86_T0.5200.29
73_G103_V0.5200.29
64_S99_H0.5200.29
15_T26_A0.5180.29
3_R15_T0.5150.28
8_S26_A0.5140.28
55_A78_F0.5120.28
14_Y28_P0.5050.28
37_D58_F0.5050.28
58_F92_Y0.5040.28
69_D95_S0.5000.27
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  
3f3bA 1 0.9048 83.6 0.844 Contact Map
2kcaA 1 0.9619 38.2 0.887 Contact Map
2kz4A 1 0.9238 19.1 0.902 Contact Map
3bmbA 1 0.9429 18.7 0.903 Contact Map
1grjA 1 0.8476 13.2 0.909 Contact Map
3uv9A 3 0.5429 12.1 0.911 Contact Map
2f23A 1 0.8286 11.2 0.912 Contact Map
2eifA 1 0.4857 8.9 0.916 Contact Map
2pn0A 2 0.8476 8.4 0.917 Contact Map
4qt6A 1 0.4286 8.1 0.917 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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