GREMLIN Database
Cas_VVA1548 - Putative CRISPR-associated protein (Cas_VVA1548)
PFAM: PF09652 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 91 (89)
Sequences: 932 (800)
Seq/√Len: 84.7
META: 0.907

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
65_P68_L3.5641.00
15_E79_R3.5211.00
56_R87_E3.4321.00
68_L81_Y3.1381.00
65_P81_Y2.6571.00
58_T87_E2.6401.00
68_L77_E2.6201.00
77_E80_A2.4541.00
2_F13_L2.4511.00
16_Q79_R2.4161.00
50_V55_A2.2181.00
8_G75_A2.1001.00
47_A51_C2.0571.00
15_E76_E1.9031.00
71_R77_E1.8611.00
47_A50_V1.8331.00
37_T58_T1.8271.00
74_T77_E1.8181.00
37_T56_R1.7871.00
61_S86_E1.7851.00
62_L78_M1.6851.00
44_V47_A1.6671.00
44_V57_Y1.5741.00
54_G57_Y1.4280.99
4_T41_T1.2160.98
12_W78_M1.1900.97
4_T13_L1.1840.97
12_W16_Q1.1830.97
22_R31_E1.1600.97
5_R72_E1.1560.97
9_A78_M1.0980.96
39_I58_T1.0780.95
5_R69_R1.0400.94
9_A41_T1.0320.94
63_D84_R1.0030.93
68_L71_R0.9980.93
39_I85_L0.9880.92
9_A60_L0.9720.92
45_H59_H0.9590.91
37_T87_E0.9520.91
49_E52_A0.9330.90
11_E14_R0.9140.89
27_L55_A0.9060.89
10_V23_V0.8990.88
13_L18_I0.8830.87
34_P49_E0.8740.87
20_V23_V0.8720.87
10_V20_V0.8690.87
61_S88_Y0.8470.85
12_W83_A0.8390.85
28_D31_E0.8340.84
37_T55_A0.8280.84
32_V55_A0.8280.84
26_H69_R0.8270.84
25_A66_P0.8170.83
29_P32_V0.8080.82
45_H64_L0.7970.82
44_V90_V0.7890.81
73_L77_E0.7870.81
47_A90_V0.7800.80
38_V42_L0.7740.80
64_L73_L0.7730.80
15_E75_A0.7630.79
76_E80_A0.7610.78
3_V24_V0.7530.78
10_V25_A0.7450.77
27_L32_V0.7440.77
5_R70_G0.7270.75
12_W82_G0.7190.74
22_R25_A0.7130.74
36_D55_A0.7030.73
61_S85_L0.6970.72
61_S84_R0.6920.72
18_I39_I0.6870.71
18_I21_D0.6740.70
47_A57_Y0.6730.69
50_V57_Y0.6700.69
78_M83_A0.6660.69
6_H69_R0.6660.69
61_S83_A0.6570.68
45_H61_S0.6530.67
6_H72_E0.6520.67
41_T57_Y0.6490.67
11_E15_E0.6490.67
8_G12_W0.6470.66
78_M81_Y0.6470.66
59_H86_E0.6460.66
7_P72_E0.6390.65
45_H57_Y0.6390.65
56_R89_R0.6370.65
36_D54_G0.6350.65
33_V52_A0.6340.65
48_A52_A0.6340.65
11_E89_R0.6320.65
74_T79_R0.6230.64
31_E34_P0.6200.63
82_G85_L0.6190.63
52_A80_A0.6140.62
32_V36_D0.6110.62
7_P11_E0.6090.62
44_V59_H0.5970.60
8_G72_E0.5930.60
8_G78_M0.5920.60
63_D68_L0.5880.59
7_P38_V0.5830.58
45_H49_E0.5790.58
3_V42_L0.5740.57
47_A54_G0.5700.57
29_P33_V0.5620.56
58_T85_L0.5590.55
24_V31_E0.5590.55
32_V54_G0.5560.55
45_H63_D0.5560.55
77_E81_Y0.5540.55
85_L88_Y0.5500.54
41_T45_H0.5470.54
33_V54_G0.5460.54
45_H62_L0.5450.53
29_P49_E0.5430.53
64_L68_L0.5430.53
78_M82_G0.5430.53
33_V49_E0.5380.53
19_A22_R0.5350.52
26_H32_V0.5130.49
18_I78_M0.5110.49
8_G83_A0.5110.49
26_H66_P0.5100.49
70_G73_L0.5090.49
29_P46_L0.5070.48
13_L85_L0.5030.48
39_I54_G0.5020.48
41_T59_H0.5020.48
11_E75_A0.5010.48
19_A88_Y0.5000.47
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  
3j3iA 6 0.6484 15.8 0.907 Contact Map
4tp8M 1 0.7143 13.5 0.91 Contact Map
4rb5M 1 0.7143 12.1 0.911 Contact Map
4ov4A 2 0.5934 12.1 0.912 Contact Map
2fi0A 1 0.6703 11.8 0.912 Contact Map
1kjwA 1 0.978 11 0.913 Contact Map
2c5qA 3 0.956 10.9 0.913 Contact Map
1qwdA 1 0.3297 8.8 0.917 Contact Map
3nojA 5 0.956 7.6 0.919 Contact Map
1zrtD 1 0.7912 6.7 0.921 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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