GREMLIN Database
GVPA2 - Gas vesicle structural protein 2
UniProt: P08959 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 79 (64)
Sequences: 134 (40)
Seq/√Len: 5.0

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_I37_L4.0320.90
26_W40_E2.2260.47
39_V45_A2.1850.45
10_A19_K1.9880.39
52_L55_A1.9520.38
53_H57_E1.9490.38
16_V55_A1.7500.32
54_Y59_A1.7200.31
16_V52_L1.6920.31
26_W58_I1.6410.29
11_E48_V1.6280.29
19_K38_T1.6030.28
40_E54_Y1.5300.26
25_V57_E1.4850.25
27_A31_L1.4360.24
32_V52_L1.4330.24
30_S47_S1.4130.23
5_D11_E1.3910.23
4_P13_L1.3830.23
51_F60_K1.3420.22
57_E60_K1.3170.21
59_A62_E1.3120.21
36_I43_V1.2750.20
32_V55_A1.2270.19
18_D41_A1.1650.18
13_L39_V1.1630.18
23_V36_I1.1390.18
28_R38_T1.0730.16
13_L16_V1.0710.16
4_P60_K1.0410.16
38_T49_D1.0280.16
53_H60_K1.0140.15
51_F57_E1.0060.15
42_R52_L1.0020.15
8_S37_L0.9930.15
7_S28_R0.9820.15
54_Y60_K0.9660.15
15_R54_Y0.9650.15
32_V59_A0.9640.15
15_R21_V0.9540.14
15_R25_V0.9410.14
25_V39_V0.9160.14
26_W37_L0.9120.14
31_L38_T0.8990.14
6_S45_A0.8950.14
53_H61_I0.8840.13
16_V32_V0.8730.13
40_E60_K0.8660.13
42_R55_A0.8570.13
40_E62_E0.8570.13
15_R60_K0.8390.13
45_A63_Q0.8330.13
4_P28_R0.8320.13
13_L67_T0.7910.12
11_E54_Y0.7870.12
5_D51_F0.7600.12
21_V56_E0.7590.12
49_D53_H0.7540.12
15_R40_E0.7480.11
10_A58_I0.7360.11
56_E62_E0.7350.11
7_S29_I0.7180.11
4_P62_E0.7120.11
54_Y62_E0.7100.11
31_L67_T0.7100.11
49_D65_E0.7030.11
6_S43_V0.6840.11
47_S50_T0.6830.11
40_E53_H0.6800.11
16_V42_R0.6720.10
40_E58_I0.6630.10
23_V65_E0.6420.10
12_V52_L0.6380.10
38_T47_S0.6270.10
25_V63_Q0.6180.10
11_E15_R0.6180.10
25_V43_V0.6170.10
12_V50_T0.6140.10
49_D56_E0.6040.10
18_D66_L0.5910.10
10_A67_T0.5880.09
8_S21_V0.5770.09
32_V42_R0.5770.09
4_P43_V0.5700.09
13_L49_D0.5600.09
25_V51_F0.5590.09
21_V47_S0.5520.09
11_E21_V0.5360.09
4_P49_D0.5210.09
11_E26_W0.5140.09
11_E49_D0.5100.09
58_I67_T0.5100.09
40_E63_Q0.5050.09
29_I62_E0.5040.09
26_W64_A0.5010.09
11_E40_E0.5000.09
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 0.6709 14.6 0.92 Contact Map
2qmxA 3 0.8354 9 0.927 Contact Map
3e9kA 2 0.6835 7.9 0.929 Contact Map
3mwbA 3 0.8354 7.2 0.93 Contact Map
4lhdA 2 0.9494 7.1 0.93 Contact Map
4lubA 2 0.8228 7.1 0.93 Contact Map
3luyA 2 0.9873 6.4 0.932 Contact Map
2dw0A 1 0.962 6.2 0.932 Contact Map
2yrrA 2 0.6835 6.2 0.932 Contact Map
1eluA 2 0.6582 5.8 0.933 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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