GREMLIN Database
GVPA1 - Gas vesicle structural protein 1
UniProt: P08958 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 76 (63)
Sequences: 133 (38)
Seq/√Len: 4.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
29_V37_L3.0620.70
39_V45_A2.4210.51
52_L55_A2.0970.41
26_W40_E1.9950.38
53_H57_E1.9090.35
32_V52_L1.8960.35
16_V55_A1.8500.33
40_E54_Y1.7950.32
10_A19_K1.6110.27
11_E48_V1.5050.25
16_V52_L1.4900.24
54_Y59_A1.4790.24
25_V57_E1.4620.24
32_V55_A1.4400.23
19_K38_T1.4070.22
12_V50_T1.4070.22
32_V59_A1.3570.21
38_T49_D1.3540.21
14_D39_V1.3380.21
31_L38_T1.3340.21
28_R38_T1.3320.21
53_H61_I1.3110.20
27_A31_L1.3080.20
59_A62_E1.2970.20
57_E60_K1.2970.20
40_E60_K1.2460.19
30_S47_S1.2270.19
23_V36_I1.2200.18
26_W37_L1.1480.17
26_W58_I1.1370.17
51_F60_K1.1100.16
39_V56_E1.1060.16
7_S29_V1.1010.16
54_Y60_K1.0880.16
7_S28_R1.0610.16
8_G21_V1.0590.16
11_E21_V1.0320.15
53_H60_K0.9780.14
43_V67_T0.9720.14
36_I49_D0.9250.14
40_E62_E0.9170.13
11_E15_R0.9060.13
25_V43_V0.8750.13
15_R54_Y0.8670.13
11_E40_E0.8590.13
36_I43_V0.8580.13
15_R40_E0.8530.12
15_R45_A0.8390.12
42_R55_A0.8170.12
15_R60_K0.8160.12
11_E54_Y0.8100.12
49_D53_H0.7840.12
51_F57_E0.7810.12
15_R25_V0.7770.11
6_S43_V0.7690.11
18_D64_A0.7590.11
42_R52_L0.7480.11
14_D52_L0.7460.11
38_T47_S0.7410.11
11_E49_D0.7360.11
29_V36_I0.7270.11
16_V32_V0.7150.11
8_G37_L0.7100.11
54_Y62_E0.7100.11
19_K36_I0.7060.11
18_D66_L0.6870.10
45_A63_Q0.6750.10
27_A47_S0.6680.10
13_L16_V0.6670.10
52_L58_I0.6540.10
16_V42_R0.6480.10
5_D11_E0.6450.10
52_L59_A0.6420.10
54_Y58_I0.6140.10
21_V40_E0.6100.10
25_V39_V0.6070.09
8_G60_K0.6040.09
6_S27_A0.5880.09
40_E58_I0.5880.09
15_R21_V0.5840.09
13_L49_D0.5770.09
37_L50_T0.5720.09
7_S12_V0.5690.09
7_S27_A0.5600.09
29_V64_A0.5580.09
7_S21_V0.5450.09
26_W64_A0.5350.09
15_R43_V0.5290.09
28_R50_T0.5280.09
16_V25_V0.5280.09
56_E62_E0.5240.09
12_V16_V0.5050.08
31_L40_E0.5010.08
29_V62_E0.5000.08
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  
1vjoA 2 0.6974 15.5 0.915 Contact Map
2j3xA 1 0.9342 10.2 0.921 Contact Map
2qmxA 3 0.8289 10 0.922 Contact Map
4lubA 2 0.8158 8.4 0.924 Contact Map
3mwbA 3 0.8289 7.9 0.925 Contact Map
3e9kA 2 0.7105 7.9 0.925 Contact Map
3luyA 2 0.9868 7.5 0.926 Contact Map
2yrrA 2 0.7105 6.6 0.928 Contact Map
1eluA 2 0.7237 6.1 0.929 Contact Map
2aeuA 2 0.7632 5.7 0.93 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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